diff --git a/apps/desktop/src/ipc/DesktopIpcHandlers.ts b/apps/desktop/src/ipc/DesktopIpcHandlers.ts
index c97c602552f4..25392b9d4b63 100644
--- a/apps/desktop/src/ipc/DesktopIpcHandlers.ts
+++ b/apps/desktop/src/ipc/DesktopIpcHandlers.ts
@@ -47,6 +47,7 @@ import {
   checkSystemPermission,
   pasteAsText,
   probeRemoteEditors,
+  revealWindow,
   pickFolder,
   pickProjectFavicon,
   pickThemeFiles,
@@ -134,6 +135,7 @@ export const installDesktopIpcHandlers = Effect.fn("desktop.ipc.installHandlers"
   yield* ipc.handle(openSystemSettings);
   yield* ipc.handle(checkSystemPermission);
   yield* ipc.handle(pasteAsText);
+  yield* ipc.handle(revealWindow);
   yield* ipc.handle(probeRemoteEditors);
   yield* ipc.handle(getUpdateState);
   yield* ipc.handle(setUpdateChannel);
diff --git a/apps/desktop/src/ipc/channels.ts b/apps/desktop/src/ipc/channels.ts
index 226793657848..c7e1638a135a 100644
--- a/apps/desktop/src/ipc/channels.ts
+++ b/apps/desktop/src/ipc/channels.ts
@@ -1,5 +1,6 @@
 export const PICK_FOLDER_CHANNEL = "desktop:pick-folder";
 export const SET_NOTIFICATION_BADGE_CHANNEL = "desktop:set-notification-badge";
+export const REVEAL_WINDOW_CHANNEL = "desktop:reveal-window";
 export const PICK_PROJECT_FAVICON_CHANNEL = "desktop:pick-project-favicon";
 export const PICK_THEME_FILES_CHANNEL = "desktop:pick-theme-files";
 export const SET_THEME_CHANNEL = "desktop:set-theme";
diff --git a/apps/desktop/src/ipc/methods/window.test.ts b/apps/desktop/src/ipc/methods/window.test.ts
index 764056742372..9781206b946e 100644
--- a/apps/desktop/src/ipc/methods/window.test.ts
+++ b/apps/desktop/src/ipc/methods/window.test.ts
@@ -31,6 +31,7 @@ import {
   pasteAsText,
   pickProjectFavicon,
   probeRemoteEditors,
+  revealWindow,
 } from "./window.ts";
 
 const readyWslConfig: DesktopBackendManager.DesktopBackendStartConfig = {
@@ -214,6 +215,26 @@ describe("pasteAsText", () => {
   );
 });
 
+describe("revealWindow", () => {
+  it.effect("reveals the main window only when it asks", () => {
+    const window = { webContents: { id: 42 } } as unknown as Electron.BrowserWindow;
+    const reveal = vi.fn(() => Effect.void);
+    return Effect.gen(function* () {
+      yield* revealWindow.handler(undefined, { sender: { id: 99 } });
+      assert.equal(reveal.mock.calls.length, 0);
+      yield* revealWindow.handler(undefined, { sender: { id: 42 } });
+      assert.deepEqual(reveal.mock.calls, [[window]]);
+    }).pipe(
+      Effect.provide(
+        Layer.mock(ElectronWindow.ElectronWindow)({
+          main: Effect.succeed(Option.some(window)),
+          reveal,
+        }),
+      ),
+    );
+  });
+});
+
 describe("pickProjectFavicon", () => {
   const pickerLayer = (pickFiles: () => Effect.Effect<Array<string>>, settings?: DesktopSettings) =>
     Layer.mergeAll(
diff --git a/apps/desktop/src/ipc/methods/window.ts b/apps/desktop/src/ipc/methods/window.ts
index 75f34ab07ab1..2faf3d604670 100644
--- a/apps/desktop/src/ipc/methods/window.ts
+++ b/apps/desktop/src/ipc/methods/window.ts
@@ -373,6 +373,24 @@ export const pasteAsText = DesktopIpc.makeIpcMethod({
   }),
 });
 
+export const revealWindow = DesktopIpc.makeIpcMethod({
+  channel: IpcChannels.REVEAL_WINDOW_CHANNEL,
+  payload: Schema.Undefined,
+  result: Schema.Void,
+  handler: Effect.fn("desktop.ipc.window.revealWindow")(function* (_input, event) {
+    const electronWindow = yield* ElectronWindow.ElectronWindow;
+    const window = yield* electronWindow.main;
+    if (
+      event === undefined ||
+      Option.isNone(window) ||
+      window.value.webContents.id !== event.sender.id
+    ) {
+      return;
+    }
+    yield* electronWindow.reveal(window.value);
+  }),
+});
+
 /** Theme files are a few KB; anything larger returns empty text and lets the
  *  renderer reject it by size without the contents ever crossing the bridge. */
 const PICKED_THEME_FILE_MAX_BYTES = 256 * 1024;
diff --git a/apps/desktop/src/preload.ts b/apps/desktop/src/preload.ts
index 885b31a64d6b..a29a55a12755 100644
--- a/apps/desktop/src/preload.ts
+++ b/apps/desktop/src/preload.ts
@@ -78,6 +78,7 @@ contextBridge.exposeInMainWorld("desktopBridge", {
     ipcRenderer.on(IpcChannels.SET_NOTIFICATION_BADGE_CHANNEL, handler);
     return () => ipcRenderer.removeListener(IpcChannels.SET_NOTIFICATION_BADGE_CHANNEL, handler);
   },
+  revealWindow: () => ipcRenderer.invoke(IpcChannels.REVEAL_WINDOW_CHANNEL),
   getSystemLocale: () => {
     const result = ipcRenderer.sendSync(IpcChannels.GET_SYSTEM_LOCALE_CHANNEL);
     return typeof result === "string" ? result : null;
diff --git a/apps/web/src/components/ThreadNotificationCoordinator.test.tsx b/apps/web/src/components/ThreadNotificationCoordinator.test.tsx
index 860b6389dc12..d3c75b5ca01c 100644
--- a/apps/web/src/components/ThreadNotificationCoordinator.test.tsx
+++ b/apps/web/src/components/ThreadNotificationCoordinator.test.tsx
@@ -251,4 +251,23 @@ describe("thread notifications", () => {
       silent: true,
     });
   });
+
+  it("reveals the desktop window and opens the thread when a system alert is clicked", async () => {
+    const revealWindow = vi.fn(() => Promise.resolve());
+    vi.stubGlobal(
+      "window",
+      Object.assign(new EventTarget(), { focus: vi.fn(), desktopBridge: { revealWindow } }),
+    );
+    state.mode = "notifications";
+    state.focused = false;
+    await render();
+    await complete();
+    const notification: EventTarget = state.notification.mock.results[0]?.value;
+    notification.dispatchEvent(new Event("click"));
+    expect(revealWindow).toHaveBeenCalledTimes(1);
+    expect(state.navigate).toHaveBeenCalledWith({
+      to: "/$environmentId/$threadId",
+      params: { environmentId: "env-1", threadId: "thread-1" },
+    });
+  });
 });
diff --git a/apps/web/src/components/ThreadNotificationCoordinator.tsx b/apps/web/src/components/ThreadNotificationCoordinator.tsx
index 5feda71ea8f3..3f1fde40a40f 100644
--- a/apps/web/src/components/ThreadNotificationCoordinator.tsx
+++ b/apps/web/src/components/ThreadNotificationCoordinator.tsx
@@ -185,6 +185,7 @@ function EnvironmentNotifications({
         notification.addEventListener("click", () => {
           notification.close();
           window.focus();
+          void window.desktopBridge?.revealWindow?.().catch(() => undefined);
           void navigate({
             to: "/$environmentId/$threadId",
             params: { environmentId, threadId: thread.id },
diff --git a/packages/contracts/src/ipc.ts b/packages/contracts/src/ipc.ts
index 7e738b97786b..3c9fbe70eba6 100644
--- a/packages/contracts/src/ipc.ts
+++ b/packages/contracts/src/ipc.ts
@@ -1101,6 +1101,12 @@ export interface DesktopBridge {
   getClientPlatform?: () => string;
   setNotificationBadge?: (badge: { count: number; image: string | null }) => Promise<void>;
   onNotificationBadgeClear?: (listener: () => void) => () => void;
+  /**
+   * Restores and focuses the calling window from the main process. Renderer
+   * `window.focus()` cannot raise an Electron window, and on Wayland only the
+   * main process can spend a notification click's activation token.
+   */
+  revealWindow?: () => Promise<void>;
   /**
    * The OS locale as a BCP-47 tag, which the renderer cannot read for itself:
    * the packaged app ships only the `en-US` Chromium locale pak, so