Merge branch 'main' into dev

Resolve 38 conflicts preserving both sides' work:
- Server: DB-based registries (dev) + WorkspaceGitService/DaemonConfigStore (main)
- App: script proxy/voice MCP (dev) + pin/hide tabs/bootstrap boundary (main)
- Shared: WorkspaceScriptPayload (dev) + git/GitHub runtime schemas (main)
- Deleted workspace-registry-bootstrap.ts (dev's DB approach supersedes)

packages/server/src/client/daemon-client.test.ts

@@ -759,7 +759,7 @@ describe("DaemonClient", () => {
     expect(request.message.type).toBe("subscribe_checkout_diff_request");
     expect(request.message.subscriptionId).toBe("checkout-sub-1");
     expect(request.message.cwd).toBe("/tmp/project");
-    expect(request.message.compare).toEqual({ mode: "uncommitted" });
+    expect(request.message.compare).toEqual({ mode: "uncommitted", ignoreWhitespace: false });
 
     mock.triggerMessage(
       JSON.stringify({
@@ -818,7 +818,11 @@ describe("DaemonClient", () => {
     };
     expect(subscribeRequest.message.type).toBe("subscribe_checkout_diff_request");
     expect(subscribeRequest.message.cwd).toBe("/tmp/project");
-    expect(subscribeRequest.message.compare).toEqual({ mode: "base", baseRef: "main" });
+    expect(subscribeRequest.message.compare).toEqual({
+      mode: "base",
+      baseRef: "main",
+      ignoreWhitespace: false,
+    });
 
     mock.triggerMessage(
       JSON.stringify({