feat: bump typescript (#14507)

<!-- This is an auto-generated comment: release notes by coderabbit.ai
-->
## Summary by CodeRabbit

* **Chores**
  * Upgraded TypeScript toolchain to v5.9.3 across packages and tooling.
* Removed legacy ts-node and migrated developer tooling to newer
runtimes (tsx/SWC) where applicable.
* **Documentation**
* Updated developer CLI docs and runtime behavior notes to reflect the
new loader/runtime for running TypeScript files; no changes to public
APIs or end-user behavior.
<!-- end of auto-generated comment: release notes by coderabbit.ai -->

tools/doc-diff/package.json

@@ -13,10 +13,10 @@
   },
   "dependencies": {
     "@affine-tools/cli": "workspace:*",
-    "typescript": "^5.7.2",
     "yjs": "^13.6.27"
   },
   "devDependencies": {
-    "@types/node": "^22.0.0"
+    "@types/node": "^22.0.0",
+    "typescript": "^5.9.3"
   }
 }