diff --git a/.github/deployment/self-host/compose.yaml b/.github/deployment/self-host/compose.yaml
new file mode 100644
index 0000000000..dde7dc8ba0
--- /dev/null
+++ b/.github/deployment/self-host/compose.yaml
@@ -0,0 +1,60 @@
+services:
+  affine:
+    image: ghcr.io/toeverything/affine-graphql:stable
+    container_name: affine_selfhosted
+    command:
+      ['sh', '-c', 'node ./scripts/self-host-predeploy && node ./dist/index.js']
+    ports:
+      - '3010:3010'
+      - '5555:5555'
+    depends_on:
+      redis:
+        condition: service_healthy
+      postgres:
+        condition: service_healthy
+    volumes:
+      # custom configurations
+      - ~/.affine/self-host/config:/root/.affine/config
+      # blob storage
+      - ~/.affine/self-host/storage:/root/.affine/storage
+    logging:
+      driver: 'json-file'
+      options:
+        max-size: '1000m'
+    restart: unless-stopped
+    environment:
+      - NODE_OPTIONS="--import=./scripts/register.js"
+      - AFFINE_CONFIG_PATH=/root/.affine/config
+      - REDIS_SERVER_HOST=redis
+      - DATABASE_URL=postgres://affine:affine@postgres:5432/affine
+      - NODE_ENV=production
+      # Telemetry allows us to collect data on how you use the affine. This data will helps us improve the app and provide better features.
+      # Uncomment next line if you wish to quit telemetry.
+      # - TELEMETRY_ENABLE=false
+  redis:
+    image: redis
+    container_name: affine_redis
+    restart: unless-stopped
+    volumes:
+      - ~/.affine/self-host/redis:/data
+    healthcheck:
+      test: ['CMD', 'redis-cli', '--raw', 'incr', 'ping']
+      interval: 10s
+      timeout: 5s
+      retries: 5
+  postgres:
+    image: postgres:16
+    container_name: affine_postgres
+    restart: unless-stopped
+    volumes:
+      - ~/.affine/self-host/postgres:/var/lib/postgresql/data
+    healthcheck:
+      test: ['CMD-SHELL', 'pg_isready -U affine']
+      interval: 10s
+      timeout: 5s
+      retries: 5
+    environment:
+      POSTGRES_USER: affine
+      POSTGRES_PASSWORD: affine
+      POSTGRES_DB: affine
+      PGDATA: /var/lib/postgresql/data/pgdata
diff --git a/.github/workflows/build-images.yml b/.github/workflows/build-images.yml
index 32b6b88f4e..644bbe5c0c 100644
--- a/.github/workflows/build-images.yml
+++ b/.github/workflows/build-images.yml
@@ -13,6 +13,31 @@ permissions:
   packages: 'write'
 
 jobs:
+  build-server:
+    name: Build Server
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - name: Setup Version
+        id: version
+        uses: ./.github/actions/setup-version
+      - name: Setup Node.js
+        uses: ./.github/actions/setup-node
+        with:
+          electron-install: false
+          extra-flags: workspaces focus @affine/server @types/affine__env
+      - name: Build Server
+        run: |
+          find packages/backend/server/src -type d -name "__tests__" -exec rm -rf {} +
+          rm -rf packages/backend/server/src/seed
+          yarn workspace @affine/server build
+      - name: Upload server dist
+        uses: actions/upload-artifact@v4
+        with:
+          name: server-dist
+          path: ./packages/backend/server/dist
+          if-no-files-found: error
+
   build-web:
     name: Build @affine/web
     runs-on: ubuntu-latest
@@ -118,7 +143,7 @@ jobs:
       matrix:
         targets:
           - name: x86_64-unknown-linux-gnu
-            file: server-native.x64.node
+            file: server-native.node
           - name: aarch64-unknown-linux-gnu
             file: server-native.arm64.node
           - name: armv7-unknown-linux-gnueabihf
@@ -139,46 +164,11 @@ jobs:
         with:
           target: ${{ matrix.targets.name }}
           package: '@affine/server-native'
-      - name: Rename ${{ matrix.targets.file }}
-        run: |
-          mv ./packages/backend/native/server-native.node ./packages/backend/native/${{ matrix.targets.file }}
       - name: Upload ${{ matrix.targets.file }}
         uses: actions/upload-artifact@v4
         with:
-          name: server-native-${{ matrix.targets.file }}
-          path: ./packages/backend/native/${{ matrix.targets.file }}
-          if-no-files-found: error
-
-  build-server:
-    name: Build Server
-    runs-on: ubuntu-latest
-    needs:
-      - build-server-native
-    steps:
-      - uses: actions/checkout@v4
-      - name: Setup Version
-        id: version
-        uses: ./.github/actions/setup-version
-      - name: Setup Node.js
-        uses: ./.github/actions/setup-node
-        with:
-          electron-install: false
-          extra-flags: workspaces focus @affine/server @types/affine__env
-      - name: Download server-native
-        uses: actions/download-artifact@v4
-        with:
-          pattern: server-native-*
-          merge-multiple: true
-          path: ./packages/backend/native
-      - name: List server-native files
-        run: ls -alh ./packages/backend/native
-      - name: Build Server
-        run: yarn workspace @affine/server build
-      - name: Upload server dist
-        uses: actions/upload-artifact@v4
-        with:
-          name: server-dist
-          path: ./packages/backend/server/dist
+          name: ${{ matrix.targets.file }}
+          path: ./packages/backend/native/server-native.node
           if-no-files-found: error
 
   build-images:
@@ -189,6 +179,7 @@ jobs:
       - build-web
       - build-mobile
       - build-admin
+      - build-server-native
     steps:
       - uses: actions/checkout@v4
       - name: Download server dist
@@ -196,6 +187,25 @@ jobs:
         with:
           name: server-dist
           path: ./packages/backend/server/dist
+      - name: Download server-native.node
+        uses: actions/download-artifact@v4
+        with:
+          name: server-native.node
+          path: ./packages/backend/server
+      - name: Download server-native.node arm64
+        uses: actions/download-artifact@v4
+        with:
+          name: server-native.arm64.node
+          path: ./packages/backend/native
+      - name: Download server-native.node arm64
+        uses: actions/download-artifact@v4
+        with:
+          name: server-native.armv7.node
+          path: .
+      - name: move server-native files
+        run: |
+          mv ./packages/backend/native/server-native.node ./packages/backend/server/server-native.arm64.node
+          mv server-native.node ./packages/backend/server/server-native.armv7.node
       - name: Setup env
         run: |
           echo "GIT_SHORT_HASH=$(git rev-parse --short HEAD)" >> "$GITHUB_ENV"
diff --git a/.github/workflows/build-test.yml b/.github/workflows/build-test.yml
index 34e1a8b408..008ed9051a 100644
--- a/.github/workflows/build-test.yml
+++ b/.github/workflows/build-test.yml
@@ -582,7 +582,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Prepare Server Test Environment
         uses: ./.github/actions/server-test-env
@@ -644,7 +644,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Prepare Server Test Environment
         uses: ./.github/actions/server-test-env
@@ -885,7 +885,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Prepare Server Test Environment
         if: ${{ steps.check-blocksuite-update.outputs.skip != 'true' || steps.apifilter.outputs.changed == 'true' }}
@@ -982,7 +982,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Prepare Server Test Environment
         if: ${{ steps.check-blocksuite-update.outputs.skip != 'true' || steps.e2efilter.outputs.changed == 'true' }}
@@ -1077,7 +1077,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Download affine.linux-x64-gnu.node
         uses: actions/download-artifact@v4
diff --git a/.github/workflows/copilot-test.yml b/.github/workflows/copilot-test.yml
index c50420b68b..8e78b95851 100644
--- a/.github/workflows/copilot-test.yml
+++ b/.github/workflows/copilot-test.yml
@@ -73,7 +73,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Prepare Server Test Environment
         env:
@@ -142,7 +142,7 @@ jobs:
         uses: actions/download-artifact@v4
         with:
           name: server-native.node
-          path: ./packages/backend/native
+          path: ./packages/backend/server
 
       - name: Prepare Server Test Environment
         env:
diff --git a/packages/backend/native/index.js b/packages/backend/native/index.js
index 3a075e45b8..7a93344621 100644
--- a/packages/backend/native/index.js
+++ b/packages/backend/native/index.js
@@ -1,21 +1,15 @@
-/** @type {import('.')} */
-let binding;
-try {
-  binding = require('./server-native.node');
-} catch {
-  binding =
-    process.arch === 'arm64'
-      ? require('./server-native.arm64.node')
-      : process.arch === 'arm'
-        ? require('./server-native.armv7.node')
-        : require('./server-native.x64.node');
-}
+import { createRequire } from 'node:module';
 
-module.exports.mergeUpdatesInApplyWay = binding.mergeUpdatesInApplyWay;
-module.exports.verifyChallengeResponse = binding.verifyChallengeResponse;
-module.exports.mintChallengeResponse = binding.mintChallengeResponse;
-module.exports.getMime = binding.getMime;
-module.exports.Tokenizer = binding.Tokenizer;
-module.exports.fromModelName = binding.fromModelName;
-module.exports.htmlSanitize = binding.htmlSanitize;
-module.exports.parseDoc = binding.parseDoc;
+const require = createRequire(import.meta.url);
+
+/** @type {import('.')} */
+const binding = require('./server-native.node');
+
+export const mergeUpdatesInApplyWay = binding.mergeUpdatesInApplyWay;
+export const verifyChallengeResponse = binding.verifyChallengeResponse;
+export const mintChallengeResponse = binding.mintChallengeResponse;
+export const getMime = binding.getMime;
+export const Tokenizer = binding.Tokenizer;
+export const fromModelName = binding.fromModelName;
+export const htmlSanitize = binding.htmlSanitize;
+export const parseDoc = binding.parseDoc;
diff --git a/packages/backend/native/package.json b/packages/backend/native/package.json
index dfa425256f..d1182a2223 100644
--- a/packages/backend/native/package.json
+++ b/packages/backend/native/package.json
@@ -4,6 +4,7 @@
   "engines": {
     "node": ">= 10.16.0 < 11 || >= 11.8.0"
   },
+  "type": "module",
   "main": "./index.js",
   "module": "./index.js",
   "types": "index.d.ts",
diff --git a/packages/backend/server/package.json b/packages/backend/server/package.json
index c0e1bdf5c9..3ff76ab9b5 100644
--- a/packages/backend/server/package.json
+++ b/packages/backend/server/package.json
@@ -8,7 +8,7 @@
     "run-test": "./scripts/run-test.ts"
   },
   "scripts": {
-    "build": "affine bundle",
+    "build": "tsc -b",
     "dev": "nodemon ./src/index.ts",
     "dev:mail": "email dev -d src/mails",
     "test": "ava --concurrency 1 --serial",
@@ -17,16 +17,14 @@
     "test:copilot:coverage": "c8 ava --timeout=5m \"src/__tests__/copilot-*.spec.ts\"",
     "e2e": "cross-env TEST_MODE=e2e ava --serial",
     "e2e:coverage": "cross-env TEST_MODE=e2e c8 ava --serial",
-    "data-migration": "cross-env NODE_ENV=development SERVER_FLAVOR=script r ./src/index.ts",
+    "data-migration": "cross-env NODE_ENV=development r ./src/data/index.ts",
     "init": "yarn prisma migrate dev && yarn data-migration run",
     "seed": "r ./src/seed/index.ts",
     "genconfig": "r ./scripts/genconfig.ts",
-    "cli": "cross-env SERVER_FLAVOR=script node ./dist/main.js",
-    "predeploy": "yarn prisma migrate deploy && yarn cli run",
+    "predeploy": "yarn prisma migrate deploy && node --import ./scripts/register.js ./dist/data/index.js run",
     "postinstall": "prisma generate"
   },
   "dependencies": {
-    "@affine/server-native": "workspace:*",
     "@ai-sdk/google": "^1.2.10",
     "@ai-sdk/openai": "^1.3.9",
     "@ai-sdk/perplexity": "^1.1.6",
@@ -74,7 +72,6 @@
     "ai": "^4.3.4",
     "bullmq": "^5.40.2",
     "cookie-parser": "^1.4.7",
-    "cross-env": "^7.0.3",
     "date-fns": "^4.0.0",
     "dotenv": "^16.4.7",
     "eventemitter2": "^6.4.9",
@@ -120,6 +117,7 @@
     "@affine-tools/cli": "workspace:*",
     "@affine-tools/utils": "workspace:*",
     "@affine/graphql": "workspace:*",
+    "@affine/server-native": "workspace:*",
     "@faker-js/faker": "^9.6.0",
     "@nestjs/testing": "patch:@nestjs/testing@npm%3A10.4.15#~/.yarn/patches/@nestjs-testing-npm-10.4.15-d591a1705a.patch",
     "@types/cookie-parser": "^1.4.8",
@@ -140,6 +138,7 @@
     "@types/supertest": "^6.0.2",
     "ava": "^6.2.0",
     "c8": "^10.1.3",
+    "cross-env": "^7.0.3",
     "nodemon": "^3.1.7",
     "react-email": "4.0.7",
     "sinon": "^20.0.0",
diff --git a/packages/backend/server/scripts/loader.js b/packages/backend/server/scripts/loader.js
new file mode 100644
index 0000000000..ce31fb5096
--- /dev/null
+++ b/packages/backend/server/scripts/loader.js
@@ -0,0 +1,11 @@
+import { create, createEsmHooks } from 'ts-node';
+
+const service = create({
+  experimentalSpecifierResolution: 'node',
+  transpileOnly: true,
+  logError: true,
+  skipProject: true,
+});
+const hooks = createEsmHooks(service);
+
+export const resolve = hooks.resolve;
diff --git a/packages/backend/server/scripts/register.js b/packages/backend/server/scripts/register.js
new file mode 100644
index 0000000000..ce20ff5368
--- /dev/null
+++ b/packages/backend/server/scripts/register.js
@@ -0,0 +1,4 @@
+import { register } from 'node:module';
+import { pathToFileURL } from 'node:url';
+
+register('./scripts/loader.js', pathToFileURL('./'));
diff --git a/packages/backend/server/src/__tests__/env.spec.ts b/packages/backend/server/src/__tests__/env.spec.ts
index 970b464fd0..cd7f317dcf 100644
--- a/packages/backend/server/src/__tests__/env.spec.ts
+++ b/packages/backend/server/src/__tests__/env.spec.ts
@@ -111,7 +111,7 @@ test('should tell flavors correctly', t => {
     sync: true,
     renderer: true,
     doc: true,
-    script: false,
+    script: true,
   });
 
   process.env.SERVER_FLAVOR = 'graphql';
@@ -122,15 +122,6 @@ test('should tell flavors correctly', t => {
     doc: false,
     script: false,
   });
-
-  process.env.SERVER_FLAVOR = 'script';
-  t.deepEqual(new Env().flavors, {
-    graphql: false,
-    sync: false,
-    renderer: false,
-    doc: false,
-    script: true,
-  });
 });
 
 test('should tell selfhosted correctly', t => {
diff --git a/packages/backend/server/src/server.ts b/packages/backend/server/src/app.ts
similarity index 77%
rename from packages/backend/server/src/server.ts
rename to packages/backend/server/src/app.ts
index 35a6b4c1e1..50df53b980 100644
--- a/packages/backend/server/src/server.ts
+++ b/packages/backend/server/src/app.ts
@@ -9,7 +9,6 @@ import {
   CloudThrottlerGuard,
   Config,
   GlobalExceptionFilter,
-  URLHelper,
 } from './base';
 import { SocketIoAdapter } from './base/websocket';
 import { AuthGuard } from './core/auth';
@@ -17,7 +16,7 @@ import { serverTimingAndCache } from './middleware/timing';
 
 const OneMB = 1024 * 1024;
 
-export async function run() {
+export async function createApp() {
   const { AppModule } = await import('./app.module');
 
   const app = await NestFactory.create<NestExpressApplication>(AppModule, {
@@ -29,8 +28,7 @@ export async function run() {
 
   app.useBodyParser('raw', { limit: 100 * OneMB });
 
-  const logger = app.get(AFFiNELogger);
-  app.useLogger(logger);
+  app.useLogger(app.get(AFFiNELogger));
   const config = app.get(Config);
 
   if (config.server.path) {
@@ -59,12 +57,5 @@ export async function run() {
   const adapter = new SocketIoAdapter(app);
   app.useWebSocketAdapter(adapter);
 
-  const url = app.get(URLHelper);
-  const listeningHost = '0.0.0.0';
-
-  await app.listen(config.server.port, listeningHost);
-
-  logger.log(`AFFiNE Server is running in [${env.DEPLOYMENT_TYPE}] mode`);
-  logger.log(`Listening on http://${listeningHost}:${config.server.port}`);
-  logger.log(`And the public server should be recognized as ${url.home}`);
+  return app;
 }
diff --git a/packages/backend/server/src/data/commands/create.ts b/packages/backend/server/src/data/commands/create.ts
index 32ec689108..504dc7e365 100644
--- a/packages/backend/server/src/data/commands/create.ts
+++ b/packages/backend/server/src/data/commands/create.ts
@@ -1,5 +1,5 @@
-import { appendFileSync, writeFileSync } from 'node:fs';
-import { join, parse } from 'node:path';
+import { writeFileSync } from 'node:fs';
+import { join } from 'node:path';
 import { fileURLToPath } from 'node:url';
 
 import { Logger } from '@nestjs/common';
@@ -45,21 +45,15 @@ export class CreateCommand extends CommandRunner {
 
     const timestamp = Date.now();
     const content = this.createScript(upperFirst(camelCase(name)) + timestamp);
-    const migrationDir = join(
-      fileURLToPath(import.meta.url),
-      '../../migrations'
-    );
     const fileName = `${timestamp}-${kebabCase(name)}.ts`;
-    const filePath = join(migrationDir, fileName);
+    const filePath = join(
+      fileURLToPath(import.meta.url),
+      '../../migrations',
+      fileName
+    );
 
     this.logger.log(`Creating ${fileName}...`);
     writeFileSync(filePath, content);
-    const indexFile = join(migrationDir, 'index.ts');
-    appendFileSync(
-      indexFile,
-      `export * from './${parse(fileName).name}';`,
-      'utf-8'
-    );
     this.logger.log(`Migration file created at ${filePath}`);
     this.logger.log('Done');
   }
diff --git a/packages/backend/server/src/data/commands/run.ts b/packages/backend/server/src/data/commands/run.ts
index 4941d1b5f2..50f5016020 100644
--- a/packages/backend/server/src/data/commands/run.ts
+++ b/packages/backend/server/src/data/commands/run.ts
@@ -1,12 +1,15 @@
+import { readdirSync } from 'node:fs';
+import { join } from 'node:path';
+import { fileURLToPath, pathToFileURL } from 'node:url';
+
 import { Logger } from '@nestjs/common';
 import { ModuleRef } from '@nestjs/core';
 import { PrismaClient } from '@prisma/client';
 import { once } from 'lodash-es';
 import { Command, CommandRunner } from 'nest-commander';
 
-import * as migrations from '../migrations';
-
 interface Migration {
+  file: string;
   name: string;
   always?: boolean;
   up: (db: PrismaClient, injector: ModuleRef) => Promise<void>;
@@ -14,15 +17,33 @@ interface Migration {
 }
 
 export const collectMigrations = once(async () => {
-  return Object.values(migrations).map(migration => {
-    return {
-      name: migration.name,
-      // @ts-expect-error optional
-      always: migration.always,
-      up: migration.up,
-      down: migration.down,
-    };
-  }) as Migration[];
+  const folder = join(fileURLToPath(import.meta.url), '../../migrations');
+
+  const migrationFiles = readdirSync(folder)
+    .filter(desc =>
+      desc.endsWith(import.meta.url.endsWith('.ts') ? '.ts' : '.js')
+    )
+    .map(desc => join(folder, desc));
+
+  migrationFiles.sort((a, b) => a.localeCompare(b));
+
+  const migrations: Migration[] = await Promise.all(
+    migrationFiles.map(async file => {
+      return import(pathToFileURL(file).href).then(mod => {
+        const migration = mod[Object.keys(mod)[0]];
+
+        return {
+          file,
+          name: migration.name,
+          always: migration.always,
+          up: migration.up,
+          down: migration.down,
+        };
+      });
+    })
+  );
+
+  return migrations;
 });
 
 @Command({
diff --git a/packages/backend/server/src/cli.ts b/packages/backend/server/src/data/index.ts
similarity index 57%
rename from packages/backend/server/src/cli.ts
rename to packages/backend/server/src/data/index.ts
index 6e347a9c16..3797a9badb 100644
--- a/packages/backend/server/src/cli.ts
+++ b/packages/backend/server/src/data/index.ts
@@ -1,12 +1,16 @@
 import { Logger } from '@nestjs/common';
 import { CommandFactory } from 'nest-commander';
 
-import { CliAppModule } from './data/app';
+async function bootstrap() {
+  process.env.SERVER_FLAVOR = 'script';
 
-export async function run() {
+  await import('../prelude');
+  const { CliAppModule } = await import('./app');
   await CommandFactory.run(CliAppModule, new Logger()).catch(e => {
     console.error(e);
     process.exit(1);
   });
   process.exit(0);
 }
+
+await bootstrap();
diff --git a/packages/backend/server/src/data/migrations/index.ts b/packages/backend/server/src/data/migrations/index.ts
deleted file mode 100644
index 8b0906b456..0000000000
--- a/packages/backend/server/src/data/migrations/index.ts
+++ /dev/null
@@ -1,7 +0,0 @@
-export * from './0001-refresh-features';
-export * from './1698398506533-guid';
-export * from './1703756315970-unamed-account';
-export * from './1721299086340-refresh-unnamed-user';
-export * from './1732861452428-migrate-invite-status';
-export * from './1733125339942-universal-subscription';
-export * from './1738590347632-feature-redundant';
diff --git a/packages/backend/server/src/env.ts b/packages/backend/server/src/env.ts
index ea2a76b5e9..c308e88d47 100644
--- a/packages/backend/server/src/env.ts
+++ b/packages/backend/server/src/env.ts
@@ -102,8 +102,7 @@ export class Env implements AppEnv {
       sync: this.isFlavor(Flavor.Sync),
       renderer: this.isFlavor(Flavor.Renderer),
       doc: this.isFlavor(Flavor.Doc),
-      // Script in a special flavor, return true only when it is set explicitly
-      script: this.FLAVOR === Flavor.Script,
+      script: this.isFlavor(Flavor.Script),
     };
   }
 
diff --git a/packages/backend/server/src/index.ts b/packages/backend/server/src/index.ts
index 42806bd65c..a0354c8b0e 100644
--- a/packages/backend/server/src/index.ts
+++ b/packages/backend/server/src/index.ts
@@ -1,11 +1,20 @@
 /// <reference types="./global.d.ts" />
 import './prelude';
 
-import { run as runCli } from './cli';
-import { run as runServer } from './server';
+import { Logger } from '@nestjs/common';
 
-if (env.flavors.script) {
-  await runCli();
-} else {
-  await runServer();
-}
+import { createApp } from './app';
+import { Config, URLHelper } from './base';
+
+const app = await createApp();
+const config = app.get(Config);
+const url = app.get(URLHelper);
+const listeningHost = '0.0.0.0';
+
+await app.listen(config.server.port, listeningHost);
+
+const logger = new Logger('App');
+
+logger.log(`AFFiNE Server is running in [${env.DEPLOYMENT_TYPE}] mode`);
+logger.log(`Listening on http://${listeningHost}:${config.server.port}`);
+logger.log(`And the public server should be recognized as ${url.home}`);
diff --git a/packages/backend/server/src/native.ts b/packages/backend/server/src/native.ts
index a436cafe6c..c41618b780 100644
--- a/packages/backend/server/src/native.ts
+++ b/packages/backend/server/src/native.ts
@@ -1,4 +1,17 @@
-import * as serverNativeModule from '@affine/server-native';
+import { createRequire } from 'node:module';
+
+let serverNativeModule: typeof import('@affine/server-native');
+try {
+  serverNativeModule = await import('@affine/server-native');
+} catch {
+  const require = createRequire(import.meta.url);
+  serverNativeModule =
+    process.arch === 'arm64'
+      ? require('../server-native.arm64.node')
+      : process.arch === 'arm'
+        ? require('../server-native.armv7.node')
+        : require('../server-native.node');
+}
 
 export const mergeUpdatesInApplyWay = serverNativeModule.mergeUpdatesInApplyWay;
 
diff --git a/packages/backend/server/tsconfig.json b/packages/backend/server/tsconfig.json
index 6997a939f7..26fc078e19 100644
--- a/packages/backend/server/tsconfig.json
+++ b/packages/backend/server/tsconfig.json
@@ -12,9 +12,9 @@
   },
   "include": ["./src"],
   "references": [
-    { "path": "../native" },
     { "path": "../../../tools/cli" },
     { "path": "../../../tools/utils" },
-    { "path": "../../common/graphql" }
+    { "path": "../../common/graphql" },
+    { "path": "../native" }
   ]
 }
diff --git a/packages/common/infra/package.json b/packages/common/infra/package.json
index db90fd0aa2..b048806b3c 100644
--- a/packages/common/infra/package.json
+++ b/packages/common/infra/package.json
@@ -34,6 +34,7 @@
   "devDependencies": {
     "@affine/templates": "workspace:*",
     "@emotion/react": "^11.14.0",
+    "@swc/core": "^1.10.1",
     "@testing-library/dom": "^10.4.0",
     "@testing-library/react": "^16.1.0",
     "@types/react": "^19.0.1",
diff --git a/packages/frontend/core/package.json b/packages/frontend/core/package.json
index 34fc18f3f1..a0847b3620 100644
--- a/packages/frontend/core/package.json
+++ b/packages/frontend/core/package.json
@@ -84,6 +84,7 @@
     "zod": "^3.24.1"
   },
   "devDependencies": {
+    "@swc/core": "^1.10.1",
     "@testing-library/dom": "^10.4.0",
     "@testing-library/react": "^16.1.0",
     "@types/animejs": "^3.1.12",
diff --git a/tools/cli/package.json b/tools/cli/package.json
index 96e17bb53d..6b444993b5 100644
--- a/tools/cli/package.json
+++ b/tools/cli/package.json
@@ -21,7 +21,6 @@
     "@napi-rs/simple-git": "^0.1.19",
     "@perfsee/webpack": "^1.13.0",
     "@sentry/webpack-plugin": "^3.0.0",
-    "@swc/core": "^1.10.1",
     "@tailwindcss/postcss": "^4.0.0",
     "@vanilla-extract/webpack-plugin": "^2.3.15",
     "autoprefixer": "^10.4.20",
@@ -35,7 +34,6 @@
     "lodash-es": "^4.17.21",
     "mime-types": "^3.0.0",
     "mini-css-extract-plugin": "^2.9.2",
-    "node-loader": "^2.1.0",
     "postcss": "^8.4.49",
     "postcss-loader": "^8.1.1",
     "prettier": "^3.4.2",
diff --git a/tools/cli/src/bundle.ts b/tools/cli/src/bundle.ts
index ed786b3604..df3194f556 100644
--- a/tools/cli/src/bundle.ts
+++ b/tools/cli/src/bundle.ts
@@ -10,16 +10,12 @@ import WebpackDevServer, {
 } from 'webpack-dev-server';
 
 import { Option, PackageCommand } from './command';
-import {
-  createHTMLTargetConfig,
-  createNodeTargetConfig,
-  createWorkerTargetConfig,
-} from './webpack';
+import { createHTMLTargetConfig, createWorkerTargetConfig } from './webpack';
 
-function getBaseWorkerConfigs(pkg: Package) {
+function getBundleConfigs(pkg: Package) {
   const core = new Package('@affine/core');
 
-  return [
+  const workerConfigs = [
     createWorkerTargetConfig(
       pkg,
       core.srcPath.join(
@@ -35,9 +31,7 @@ function getBaseWorkerConfigs(pkg: Package) {
       core.srcPath.join('blocksuite/extensions/turbo-painter.worker.ts').value
     ),
   ];
-}
 
-function getBundleConfigs(pkg: Package) {
   switch (pkg.name) {
     case '@affine/admin': {
       return [createHTMLTargetConfig(pkg, pkg.srcPath.join('index.tsx').value)];
@@ -46,7 +40,6 @@ function getBundleConfigs(pkg: Package) {
     case '@affine/mobile':
     case '@affine/ios':
     case '@affine/android': {
-      const workerConfigs = getBaseWorkerConfigs(pkg);
       workerConfigs.push(
         createWorkerTargetConfig(
           pkg,
@@ -65,8 +58,6 @@ function getBundleConfigs(pkg: Package) {
       ];
     }
     case '@affine/electron-renderer': {
-      const workerConfigs = getBaseWorkerConfigs(pkg);
-
       return [
         createHTMLTargetConfig(
           pkg,
@@ -87,14 +78,10 @@ function getBundleConfigs(pkg: Package) {
         ...workerConfigs,
       ];
     }
-    case '@affine/server': {
-      return [createNodeTargetConfig(pkg, pkg.srcPath.join('index.ts').value)];
-    }
   }
 
   throw new Error(`Unsupported package: ${pkg.name}`);
 }
-
 const IN_CI = !!process.env.CI;
 const httpProxyMiddlewareLogLevel = IN_CI ? 'silent' : 'error';
 
diff --git a/tools/cli/src/webpack/index.ts b/tools/cli/src/webpack/index.ts
index 5f45c6a0f4..5d8f5908eb 100644
--- a/tools/cli/src/webpack/index.ts
+++ b/tools/cli/src/webpack/index.ts
@@ -2,7 +2,7 @@ import { createRequire } from 'node:module';
 import path from 'node:path';
 
 import { getBuildConfig } from '@affine-tools/utils/build-config';
-import { Path, ProjectRoot } from '@affine-tools/utils/path';
+import { ProjectRoot } from '@affine-tools/utils/path';
 import { Package } from '@affine-tools/utils/workspace';
 import { PerfseePlugin } from '@perfsee/webpack';
 import { sentryWebpackPlugin } from '@sentry/webpack-plugin';
@@ -75,7 +75,10 @@ export function createHTMLTargetConfig(
     },
     entry,
     output: {
-      environment: { module: true, dynamicImport: true },
+      environment: {
+        module: true,
+        dynamicImport: true,
+      },
       filename: buildConfig.debug
         ? 'js/[name].js'
         : 'js/[name].[contenthash:8].js',
@@ -124,7 +127,12 @@ export function createHTMLTargetConfig(
       },
       //#region rules
       rules: [
-        { test: /\.m?js?$/, resolve: { fullySpecified: false } },
+        {
+          test: /\.m?js?$/,
+          resolve: {
+            fullySpecified: false,
+          },
+        },
         {
           test: /\.js$/,
           enforce: 'pre',
@@ -177,7 +185,9 @@ export function createHTMLTargetConfig(
                   target: 'es2022',
                   externalHelpers: false,
                   transform: {
-                    react: { runtime: 'automatic' },
+                    react: {
+                      runtime: 'automatic',
+                    },
                     useDefineForClassFields: false,
                     decoratorVersion: '2022-03',
                   },
@@ -190,9 +200,18 @@ export function createHTMLTargetConfig(
               test: /\.(png|jpg|gif|svg|webp|mp4|zip)$/,
               type: 'asset/resource',
             },
-            { test: /\.(ttf|eot|woff|woff2)$/, type: 'asset/resource' },
-            { test: /\.txt$/, type: 'asset/source' },
-            { test: /\.inline\.svg$/, type: 'asset/inline' },
+            {
+              test: /\.(ttf|eot|woff|woff2)$/,
+              type: 'asset/resource',
+            },
+            {
+              test: /\.txt$/,
+              type: 'asset/source',
+            },
+            {
+              test: /\.inline\.svg$/,
+              type: 'asset/inline',
+            },
             {
               test: /\.css$/,
               use: [
@@ -223,7 +242,12 @@ export function createHTMLTargetConfig(
                           ]
                         : [
                             cssnano({
-                              preset: ['default', { convertValues: false }],
+                              preset: [
+                                'default',
+                                {
+                                  convertValues: false,
+                                },
+                              ],
                             }),
                           ],
                     },
@@ -274,7 +298,9 @@ export function createHTMLTargetConfig(
         new WebpackS3Plugin(),
       !buildConfig.debug &&
         process.env.PERFSEE_TOKEN &&
-        new PerfseePlugin({ project: 'affine-toeverything' }),
+        new PerfseePlugin({
+          project: 'affine-toeverything',
+        }),
       process.env.SENTRY_AUTH_TOKEN &&
         process.env.SENTRY_ORG &&
         process.env.SENTRY_PROJECT &&
@@ -299,7 +325,9 @@ export function createHTMLTargetConfig(
     ]),
     //#endregion
 
-    stats: { errorDetails: true },
+    stats: {
+      errorDetails: true,
+    },
 
     //#region optimization
     optimization: {
@@ -311,8 +339,12 @@ export function createHTMLTargetConfig(
           extractComments: true,
           terserOptions: {
             ecma: 2020,
-            compress: { unused: true },
-            mangle: { keep_classnames: true },
+            compress: {
+              unused: true,
+            },
+            mangle: {
+              keep_classnames: true,
+            },
           },
         }),
       ],
@@ -321,7 +353,9 @@ export function createHTMLTargetConfig(
       usedExports: true,
       sideEffects: true,
       removeAvailableModules: true,
-      runtimeChunk: { name: 'runtime' },
+      runtimeChunk: {
+        name: 'runtime',
+      },
       splitChunks: {
         chunks: 'all',
         minSize: 1,
@@ -348,7 +382,11 @@ export function createHTMLTargetConfig(
             priority: -10,
             reuseExistingChunk: true,
           },
-          default: { minChunks: 2, priority: -20, reuseExistingChunk: true },
+          default: {
+            minChunks: 2,
+            priority: -20,
+            reuseExistingChunk: true,
+          },
           styles: {
             name: 'styles',
             type: 'css/mini-extract',
@@ -378,7 +416,9 @@ export function createWorkerTargetConfig(
       outputModule: false,
       syncWebAssembly: true,
     },
-    entry: { [workerName]: entry },
+    entry: {
+      [workerName]: entry,
+    },
     output: {
       filename: `js/${workerName}-${buildConfig.appVersion}.worker.js`,
       path: pkg.distPath.value,
@@ -392,9 +432,14 @@ export function createWorkerTargetConfig(
     devtool: buildConfig.debug ? 'cheap-module-source-map' : 'source-map',
     resolve: {
       symlinks: true,
-      extensionAlias: { '.js': ['.js', '.ts'], '.mjs': ['.mjs', '.mts'] },
+      extensionAlias: {
+        '.js': ['.js', '.ts'],
+        '.mjs': ['.mjs', '.mts'],
+      },
       extensions: ['.js', '.ts'],
-      alias: { yjs: ProjectRoot.join('node_modules', 'yjs').value },
+      alias: {
+        yjs: ProjectRoot.join('node_modules', 'yjs').value,
+      },
     },
 
     module: {
@@ -409,7 +454,12 @@ export function createWorkerTargetConfig(
         },
       },
       rules: [
-        { test: /\.m?js?$/, resolve: { fullySpecified: false } },
+        {
+          test: /\.m?js?$/,
+          resolve: {
+            fullySpecified: false,
+          },
+        },
         {
           test: /\.js$/,
           enforce: 'pre',
@@ -458,7 +508,9 @@ export function createWorkerTargetConfig(
           {} as Record<string, string>
         )
       ),
-      new webpack.optimize.LimitChunkCountPlugin({ maxChunks: 1 }),
+      new webpack.optimize.LimitChunkCountPlugin({
+        maxChunks: 1,
+      }),
       process.env.SENTRY_AUTH_TOKEN &&
         process.env.SENTRY_ORG &&
         process.env.SENTRY_PROJECT &&
@@ -468,7 +520,9 @@ export function createWorkerTargetConfig(
           authToken: process.env.SENTRY_AUTH_TOKEN,
         }),
     ]),
-    stats: { errorDetails: true },
+    stats: {
+      errorDetails: true,
+    },
     optimization: {
       minimize: !buildConfig.debug,
       minimizer: [
@@ -478,8 +532,12 @@ export function createWorkerTargetConfig(
           extractComments: true,
           terserOptions: {
             ecma: 2020,
-            compress: { unused: true },
-            mangle: { keep_classnames: true },
+            compress: {
+              unused: true,
+            },
+            mangle: {
+              keep_classnames: true,
+            },
           },
         }),
       ],
@@ -491,120 +549,8 @@ export function createWorkerTargetConfig(
       runtimeChunk: false,
       splitChunks: false,
     },
-    performance: { hints: false },
-  };
-}
-
-export function createNodeTargetConfig(
-  pkg: Package,
-  entry: string
-): Omit<webpack.Configuration, 'name'> & { name: string } {
-  return {
-    name: entry,
-    context: ProjectRoot.value,
-    experiments: {
-      topLevelAwait: true,
-      outputModule: pkg.packageJson.type === 'module',
-      syncWebAssembly: true,
-    },
-    entry: { index: entry },
-    output: {
-      filename: `main.js`,
-      path: pkg.distPath.value,
-      clean: true,
-      globalObject: 'globalThis',
-    },
-    target: ['node', 'es2022'],
-    externals: (data, callback) => {
-      if (
-        data.request &&
-        // import ... from 'module'
-        /^[a-zA-Z@]/.test(data.request) &&
-        // not workspace deps
-        !pkg.deps.some(dep => data.request!.startsWith(dep.name))
-      ) {
-        callback(null, true);
-      } else {
-        callback(null, false);
-      }
-    },
-    externalsPresets: { node: true },
-    node: { __dirname: false, __filename: false },
-    mode: 'none',
-    devtool: 'source-map',
-    resolve: {
-      symlinks: true,
-      extensionAlias: { '.js': ['.js', '.ts'], '.mjs': ['.mjs', '.mts'] },
-      extensions: ['.js', '.ts', '.tsx', '.node'],
-      alias: { yjs: ProjectRoot.join('node_modules', 'yjs').value },
-    },
-    module: {
-      parser: {
-        javascript: { url: false, importMeta: false, createRequire: false },
-      },
-      rules: [
-        {
-          test: /\.js$/,
-          enforce: 'pre',
-          include: /@blocksuite/,
-          use: ['source-map-loader'],
-        },
-        {
-          test: /\.node$/,
-          loader: Path.dir(import.meta.url).join('node-loader.js').value,
-        },
-        {
-          test: /\.tsx?$/,
-          exclude: /node_modules/,
-          loader: 'swc-loader',
-          options: {
-            // https://swc.rs/docs/configuring-swc/
-            jsc: {
-              preserveAllComments: true,
-              parser: {
-                syntax: 'typescript',
-                dynamicImport: true,
-                topLevelAwait: true,
-                tsx: true,
-                decorators: true,
-              },
-              target: 'es2022',
-              externalHelpers: false,
-              transform: {
-                legacyDecorator: true,
-                decoratorMetadata: true,
-                react: { runtime: 'automatic' },
-              },
-            },
-            sourceMaps: true,
-            inlineSourcesContent: true,
-          },
-        },
-      ],
-    },
-    plugins: compact([
-      new webpack.optimize.LimitChunkCountPlugin({ maxChunks: 1 }),
-      new webpack.IgnorePlugin({
-        checkResource(resource) {
-          const lazyImports = [
-            '@nestjs/microservices',
-            '@nestjs/websockets/socket-module',
-            '@apollo/subgraph',
-            '@apollo/gateway',
-            '@as-integrations/fastify',
-            'ts-morph',
-            'class-validator',
-            'class-transformer',
-          ];
-          return lazyImports.some(lazyImport =>
-            resource.startsWith(lazyImport)
-          );
-        },
-      }),
-    ]),
-    stats: { errorDetails: true },
-    optimization: { nodeEnv: false },
-    performance: { hints: false },
-    ignoreWarnings: [/^(?!CriticalDependenciesWarning$)/],
+    performance: {
+      hints: false,
+    },
   };
 }
diff --git a/tools/cli/src/webpack/node-loader.js b/tools/cli/src/webpack/node-loader.js
deleted file mode 100644
index 124a4cb500..0000000000
--- a/tools/cli/src/webpack/node-loader.js
+++ /dev/null
@@ -1,18 +0,0 @@
-import { parse } from 'node:path';
-
-export const raw = true;
-/**
- * @type {import('webpack').LoaderDefinitionFunction}
- */
-export default function loader(content) {
-  const name = parse(this.resourcePath).base;
-  this.emitFile(name, content);
-
-  return `
-    import { createRequire } from 'node:module'
-
-    const require = createRequire(import.meta.url)
-    const binding = require('./${name}')
-    export default binding
-  `;
-}
diff --git a/tools/utils/src/types.ts b/tools/utils/src/types.ts
index 0a72e46415..9a7fd1cc2e 100644
--- a/tools/utils/src/types.ts
+++ b/tools/utils/src/types.ts
@@ -8,12 +8,13 @@ export interface YarnWorkspaceItem {
 
 export interface CommonPackageJsonContent {
   name: string;
-  type?: 'module' | 'commonjs';
   version: string;
   private?: boolean;
   dependencies?: { [key: string]: string };
   devDependencies?: { [key: string]: string };
   scripts?: { [key: string]: string };
   main?: string;
-  exports?: { [key: string]: string | { [key: string]: string } };
+  exports?: {
+    [key: string]: string;
+  };
 }
diff --git a/tools/utils/src/workspace.gen.ts b/tools/utils/src/workspace.gen.ts
index 30e2d39408..fc2924e8f4 100644
--- a/tools/utils/src/workspace.gen.ts
+++ b/tools/utils/src/workspace.gen.ts
@@ -963,10 +963,10 @@ export const PackageList = [
     location: 'packages/backend/server',
     name: '@affine/server',
     workspaceDependencies: [
-      'packages/backend/native',
       'tools/cli',
       'tools/utils',
       'packages/common/graphql',
+      'packages/backend/native',
     ],
   },
   {
diff --git a/yarn.lock b/yarn.lock
index 1d2120f1ce..d0032b3ad7 100644
--- a/yarn.lock
+++ b/yarn.lock
@@ -122,7 +122,6 @@ __metadata:
     "@napi-rs/simple-git": "npm:^0.1.19"
     "@perfsee/webpack": "npm:^1.13.0"
     "@sentry/webpack-plugin": "npm:^3.0.0"
-    "@swc/core": "npm:^1.10.1"
     "@tailwindcss/postcss": "npm:^4.0.0"
     "@types/lodash-es": "npm:^4.17.12"
     "@types/mime-types": "npm:^2.1.4"
@@ -140,7 +139,6 @@ __metadata:
     lodash-es: "npm:^4.17.21"
     mime-types: "npm:^3.0.0"
     mini-css-extract-plugin: "npm:^2.9.2"
-    node-loader: "npm:^2.1.0"
     postcss: "npm:^8.4.49"
     postcss-loader: "npm:^8.1.1"
     prettier: "npm:^3.4.2"
@@ -418,6 +416,7 @@ __metadata:
     "@radix-ui/react-slot": "npm:^1.1.1"
     "@radix-ui/react-toolbar": "npm:^1.1.1"
     "@sentry/react": "npm:^9.2.0"
+    "@swc/core": "npm:^1.10.1"
     "@testing-library/dom": "npm:^10.4.0"
     "@testing-library/react": "npm:^16.1.0"
     "@toeverything/infra": "workspace:*"
@@ -14287,6 +14286,7 @@ __metadata:
     "@affine/templates": "workspace:*"
     "@emotion/react": "npm:^11.14.0"
     "@preact/signals-core": "npm:^1.8.0"
+    "@swc/core": "npm:^1.10.1"
     "@testing-library/dom": "npm:^10.4.0"
     "@testing-library/react": "npm:^16.1.0"
     "@types/react": "npm:^19.0.1"
@@ -25145,7 +25145,7 @@ __metadata:
   languageName: node
   linkType: hard
 
-"loader-utils@npm:^2.0.0, loader-utils@npm:^2.0.3":
+"loader-utils@npm:^2.0.0":
   version: 2.0.4
   resolution: "loader-utils@npm:2.0.4"
   dependencies:
@@ -27407,17 +27407,6 @@ __metadata:
   languageName: node
   linkType: hard
 
-"node-loader@npm:^2.1.0":
-  version: 2.1.0
-  resolution: "node-loader@npm:2.1.0"
-  dependencies:
-    loader-utils: "npm:^2.0.3"
-  peerDependencies:
-    webpack: ^5.0.0
-  checksum: 10/d2f20b1e0f946055fcbbf365c3927ffecfff9aee3b5cc2d71e45229ca27010267d3d6fdea04dcb7c0bc7ce9b87878105b8c1d15c05065c813b5c8ec5ef1fb4d1
-  languageName: node
-  linkType: hard
-
 "node-releases@npm:^2.0.19":
   version: 2.0.19
   resolution: "node-releases@npm:2.0.19"