Revert "fix: use safeWriteJson for all JSON file writes"

[mrubens]

Reverts #3772

Looks like this causes issues with saving history, and possibly other things.

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Important

Reverts atomic JSON file writes using safeWriteJson, replacing with fs.writeFile, and updates related tests and documentation.

• Behavior:
  • Reverts use of safeWriteJson for JSON file writes, replacing it with fs.writeFile in modelCache.ts, modelEndpointCache.ts, importExport.ts, FileContextTracker.ts, apiMessages.ts, taskMessages.ts, webviewMessageHandler.ts, and McpHub.ts.
  • Removes atomic write guarantees and locking mechanisms previously provided by safeWriteJson.
• Tests:
  • Removes safeWriteJson tests from safeWriteJson.test.ts.
  • Updates tests in cache-manager.test.ts and McpHub.test.ts to reflect changes from safeWriteJson to fs.writeFile.
• Documentation:
  • Deletes use-safeWriteJson.md rule documentation.
• Dependencies:
  • Removes proper-lockfile and stream-json from package.json dependencies.

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[KJ7LNW]

See also: #4468