diff --git a/packages/cli/src/commands/extensions.test.tsx b/packages/cli/src/commands/extensions.test.tsx
index d8aae8b359..0630b398ff 100644
--- a/packages/cli/src/commands/extensions.test.tsx
+++ b/packages/cli/src/commands/extensions.test.tsx
@@ -54,15 +54,33 @@ describe('extensionsCommand', () => {
     extensionsCommand.builder(mockYargs);
 
     expect(mockYargs.middleware).toHaveBeenCalled();
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'install' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'uninstall' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'list' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'update' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'disable' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'enable' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'link' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'new' });
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'validate' });
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'install' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'uninstall' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'list' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'update' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'disable' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'enable' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'link' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'new' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'validate' }),
+    );
     expect(mockYargs.demandCommand).toHaveBeenCalledWith(1, expect.any(String));
     expect(mockYargs.version).toHaveBeenCalledWith(false);
   });
diff --git a/packages/cli/src/commands/extensions.tsx b/packages/cli/src/commands/extensions.tsx
index 8079d67256..893af14d11 100644
--- a/packages/cli/src/commands/extensions.tsx
+++ b/packages/cli/src/commands/extensions.tsx
@@ -16,6 +16,7 @@ import { newCommand } from './extensions/new.js';
 import { validateCommand } from './extensions/validate.js';
 import { configureCommand } from './extensions/configure.js';
 import { initializeOutputListenersAndFlush } from '../gemini.js';
+import { defer } from '../deferred.js';
 
 export const extensionsCommand: CommandModule = {
   command: 'extensions <command>',
@@ -24,16 +25,16 @@ export const extensionsCommand: CommandModule = {
   builder: (yargs) =>
     yargs
       .middleware(() => initializeOutputListenersAndFlush())
-      .command(installCommand)
-      .command(uninstallCommand)
-      .command(listCommand)
-      .command(updateCommand)
-      .command(disableCommand)
-      .command(enableCommand)
-      .command(linkCommand)
-      .command(newCommand)
-      .command(validateCommand)
-      .command(configureCommand)
+      .command(defer(installCommand, 'extensions'))
+      .command(defer(uninstallCommand, 'extensions'))
+      .command(defer(listCommand, 'extensions'))
+      .command(defer(updateCommand, 'extensions'))
+      .command(defer(disableCommand, 'extensions'))
+      .command(defer(enableCommand, 'extensions'))
+      .command(defer(linkCommand, 'extensions'))
+      .command(defer(newCommand, 'extensions'))
+      .command(defer(validateCommand, 'extensions'))
+      .command(defer(configureCommand, 'extensions'))
       .demandCommand(1, 'You need at least one command before continuing.')
       .version(false),
   handler: () => {
diff --git a/packages/cli/src/commands/mcp.ts b/packages/cli/src/commands/mcp.ts
index f09680dbdd..c14def2199 100644
--- a/packages/cli/src/commands/mcp.ts
+++ b/packages/cli/src/commands/mcp.ts
@@ -10,6 +10,7 @@ import { addCommand } from './mcp/add.js';
 import { removeCommand } from './mcp/remove.js';
 import { listCommand } from './mcp/list.js';
 import { initializeOutputListenersAndFlush } from '../gemini.js';
+import { defer } from '../deferred.js';
 
 export const mcpCommand: CommandModule = {
   command: 'mcp',
@@ -17,9 +18,9 @@ export const mcpCommand: CommandModule = {
   builder: (yargs: Argv) =>
     yargs
       .middleware(() => initializeOutputListenersAndFlush())
-      .command(addCommand)
-      .command(removeCommand)
-      .command(listCommand)
+      .command(defer(addCommand, 'mcp'))
+      .command(defer(removeCommand, 'mcp'))
+      .command(defer(listCommand, 'mcp'))
       .demandCommand(1, 'You need at least one command before continuing.')
       .version(false),
   handler: () => {
diff --git a/packages/cli/src/commands/skills.test.tsx b/packages/cli/src/commands/skills.test.tsx
index 5a76ab0d95..e7b9a4eb9d 100644
--- a/packages/cli/src/commands/skills.test.tsx
+++ b/packages/cli/src/commands/skills.test.tsx
@@ -38,13 +38,19 @@ describe('skillsCommand', () => {
     skillsCommand.builder(mockYargs);
 
     expect(mockYargs.middleware).toHaveBeenCalled();
-    expect(mockYargs.command).toHaveBeenCalledWith({ command: 'list' });
-    expect(mockYargs.command).toHaveBeenCalledWith({
-      command: 'enable <name>',
-    });
-    expect(mockYargs.command).toHaveBeenCalledWith({
-      command: 'disable <name>',
-    });
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({ command: 'list' }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({
+        command: 'enable <name>',
+      }),
+    );
+    expect(mockYargs.command).toHaveBeenCalledWith(
+      expect.objectContaining({
+        command: 'disable <name>',
+      }),
+    );
     expect(mockYargs.demandCommand).toHaveBeenCalledWith(1, expect.any(String));
     expect(mockYargs.version).toHaveBeenCalledWith(false);
   });
diff --git a/packages/cli/src/commands/skills.tsx b/packages/cli/src/commands/skills.tsx
index d2f249b049..b8879681cd 100644
--- a/packages/cli/src/commands/skills.tsx
+++ b/packages/cli/src/commands/skills.tsx
@@ -11,6 +11,7 @@ import { disableCommand } from './skills/disable.js';
 import { installCommand } from './skills/install.js';
 import { uninstallCommand } from './skills/uninstall.js';
 import { initializeOutputListenersAndFlush } from '../gemini.js';
+import { defer } from '../deferred.js';
 
 export const skillsCommand: CommandModule = {
   command: 'skills <command>',
@@ -19,11 +20,11 @@ export const skillsCommand: CommandModule = {
   builder: (yargs) =>
     yargs
       .middleware(() => initializeOutputListenersAndFlush())
-      .command(listCommand)
-      .command(enableCommand)
-      .command(disableCommand)
-      .command(installCommand)
-      .command(uninstallCommand)
+      .command(defer(listCommand, 'skills'))
+      .command(defer(enableCommand, 'skills'))
+      .command(defer(disableCommand, 'skills'))
+      .command(defer(installCommand, 'skills'))
+      .command(defer(uninstallCommand, 'skills'))
       .demandCommand(1, 'You need at least one command before continuing.')
       .version(false),
   handler: () => {
diff --git a/packages/cli/src/deferred.test.ts b/packages/cli/src/deferred.test.ts
new file mode 100644
index 0000000000..4ea5eb791d
--- /dev/null
+++ b/packages/cli/src/deferred.test.ts
@@ -0,0 +1,217 @@
+/**
+ * @license
+ * Copyright 2025 Google LLC
+ * SPDX-License-Identifier: Apache-2.0
+ */
+
+import { describe, it, expect, vi, beforeEach } from 'vitest';
+import {
+  runDeferredCommand,
+  defer,
+  setDeferredCommand,
+  type DeferredCommand,
+} from './deferred.js';
+import { ExitCodes } from '@google/gemini-cli-core';
+import type { ArgumentsCamelCase, CommandModule } from 'yargs';
+import type { MergedSettings } from './config/settings.js';
+import type { MockInstance } from 'vitest';
+
+const { mockRunExitCleanup, mockDebugLogger } = vi.hoisted(() => ({
+  mockRunExitCleanup: vi.fn(),
+  mockDebugLogger: {
+    log: vi.fn(),
+    error: vi.fn(),
+  },
+}));
+
+vi.mock('@google/gemini-cli-core', async () => {
+  const actual = await vi.importActual('@google/gemini-cli-core');
+  return {
+    ...actual,
+    debugLogger: mockDebugLogger,
+  };
+});
+
+vi.mock('./utils/cleanup.js', () => ({
+  runExitCleanup: mockRunExitCleanup,
+}));
+
+let mockExit: MockInstance;
+
+describe('deferred', () => {
+  beforeEach(() => {
+    vi.clearAllMocks();
+    mockExit = vi
+      .spyOn(process, 'exit')
+      .mockImplementation(() => undefined as never);
+    setDeferredCommand(undefined as unknown as DeferredCommand); // Reset deferred command
+  });
+
+  const createMockSettings = (adminSettings: unknown = {}): MergedSettings =>
+    ({
+      admin: adminSettings,
+    }) as unknown as MergedSettings;
+
+  describe('runDeferredCommand', () => {
+    it('should do nothing if no deferred command is set', async () => {
+      await runDeferredCommand(createMockSettings());
+      expect(mockDebugLogger.log).not.toHaveBeenCalled();
+      expect(mockDebugLogger.error).not.toHaveBeenCalled();
+      expect(mockExit).not.toHaveBeenCalled();
+    });
+
+    it('should execute the deferred command if enabled', async () => {
+      const mockHandler = vi.fn();
+      setDeferredCommand({
+        handler: mockHandler,
+        argv: { _: [], $0: 'gemini' } as ArgumentsCamelCase,
+        commandName: 'mcp',
+      });
+
+      const settings = createMockSettings({ mcp: { enabled: true } });
+      await runDeferredCommand(settings);
+      expect(mockHandler).toHaveBeenCalled();
+      expect(mockRunExitCleanup).toHaveBeenCalled();
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.SUCCESS);
+    });
+
+    it('should exit with FATAL_CONFIG_ERROR if MCP is disabled', async () => {
+      setDeferredCommand({
+        handler: vi.fn(),
+        argv: {} as ArgumentsCamelCase,
+        commandName: 'mcp',
+      });
+
+      const settings = createMockSettings({ mcp: { enabled: false } });
+      await runDeferredCommand(settings);
+
+      expect(mockDebugLogger.error).toHaveBeenCalledWith(
+        'Error: MCP is disabled by your admin.',
+      );
+      expect(mockRunExitCleanup).toHaveBeenCalled();
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.FATAL_CONFIG_ERROR);
+    });
+
+    it('should exit with FATAL_CONFIG_ERROR if extensions are disabled', async () => {
+      setDeferredCommand({
+        handler: vi.fn(),
+        argv: {} as ArgumentsCamelCase,
+        commandName: 'extensions',
+      });
+
+      const settings = createMockSettings({ extensions: { enabled: false } });
+      await runDeferredCommand(settings);
+
+      expect(mockDebugLogger.error).toHaveBeenCalledWith(
+        'Error: Extensions are disabled by your admin.',
+      );
+      expect(mockRunExitCleanup).toHaveBeenCalled();
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.FATAL_CONFIG_ERROR);
+    });
+
+    it('should exit with FATAL_CONFIG_ERROR if skills are disabled', async () => {
+      setDeferredCommand({
+        handler: vi.fn(),
+        argv: {} as ArgumentsCamelCase,
+        commandName: 'skills',
+      });
+
+      const settings = createMockSettings({ skills: { enabled: false } });
+      await runDeferredCommand(settings);
+
+      expect(mockDebugLogger.error).toHaveBeenCalledWith(
+        'Error: Agent skills are disabled by your admin.',
+      );
+      expect(mockRunExitCleanup).toHaveBeenCalled();
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.FATAL_CONFIG_ERROR);
+    });
+
+    it('should execute if admin settings are undefined (default implicit enable)', async () => {
+      const mockHandler = vi.fn();
+      setDeferredCommand({
+        handler: mockHandler,
+        argv: {} as ArgumentsCamelCase,
+        commandName: 'mcp',
+      });
+
+      const settings = createMockSettings({}); // No admin settings
+      await runDeferredCommand(settings);
+
+      expect(mockHandler).toHaveBeenCalled();
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.SUCCESS);
+    });
+  });
+
+  describe('defer', () => {
+    it('should wrap a command module and defer execution', async () => {
+      const originalHandler = vi.fn();
+      const commandModule: CommandModule = {
+        command: 'test',
+        describe: 'test command',
+        handler: originalHandler,
+      };
+
+      const deferredModule = defer(commandModule);
+      expect(deferredModule.command).toBe(commandModule.command);
+
+      // Execute the wrapper handler
+      const argv = { _: [], $0: 'gemini' } as ArgumentsCamelCase;
+      await deferredModule.handler(argv);
+
+      // Should check that it set the deferred command, but didn't run original handler yet
+      expect(originalHandler).not.toHaveBeenCalled();
+
+      // Now manually run it to verify it captured correctly
+      await runDeferredCommand(createMockSettings());
+      expect(originalHandler).toHaveBeenCalledWith(argv);
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.SUCCESS);
+    });
+
+    it('should use parentCommandName if provided', async () => {
+      const commandModule: CommandModule = {
+        command: 'subcommand',
+        describe: 'sub command',
+        handler: vi.fn(),
+      };
+
+      const deferredModule = defer(commandModule, 'parent');
+      await deferredModule.handler({} as ArgumentsCamelCase);
+
+      const deferredMcp = defer(commandModule, 'mcp');
+      await deferredMcp.handler({} as ArgumentsCamelCase);
+
+      const mcpSettings = createMockSettings({ mcp: { enabled: false } });
+      await runDeferredCommand(mcpSettings);
+
+      expect(mockDebugLogger.error).toHaveBeenCalledWith(
+        'Error: MCP is disabled by your admin.',
+      );
+    });
+
+    it('should fallback to unknown if no parentCommandName is provided', async () => {
+      const mockHandler = vi.fn();
+      const commandModule: CommandModule = {
+        command: ['foo', 'infoo'],
+        describe: 'foo command',
+        handler: mockHandler,
+      };
+
+      const deferredModule = defer(commandModule);
+      await deferredModule.handler({} as ArgumentsCamelCase);
+
+      // Verify it runs even if all known commands are disabled,
+      // confirming it didn't capture 'mcp', 'extensions', or 'skills'
+      // and defaulted to 'unknown' (or something else safe).
+      const settings = createMockSettings({
+        mcp: { enabled: false },
+        extensions: { enabled: false },
+        skills: { enabled: false },
+      });
+
+      await runDeferredCommand(settings);
+
+      expect(mockHandler).toHaveBeenCalled();
+      expect(mockExit).toHaveBeenCalledWith(ExitCodes.SUCCESS);
+    });
+  });
+});
diff --git a/packages/cli/src/deferred.ts b/packages/cli/src/deferred.ts
new file mode 100644
index 0000000000..73fac6d1ce
--- /dev/null
+++ b/packages/cli/src/deferred.ts
@@ -0,0 +1,78 @@
+/**
+ * @license
+ * Copyright 2026 Google LLC
+ * SPDX-License-Identifier: Apache-2.0
+ */
+import type { ArgumentsCamelCase, CommandModule } from 'yargs';
+import { debugLogger, ExitCodes } from '@google/gemini-cli-core';
+import { runExitCleanup } from './utils/cleanup.js';
+import type { MergedSettings } from './config/settings.js';
+import process from 'node:process';
+
+export interface DeferredCommand {
+  handler: (argv: ArgumentsCamelCase) => void | Promise<void>;
+  argv: ArgumentsCamelCase;
+  commandName: string;
+}
+
+let deferredCommand: DeferredCommand | undefined;
+
+export function setDeferredCommand(command: DeferredCommand) {
+  deferredCommand = command;
+}
+
+export async function runDeferredCommand(settings: MergedSettings) {
+  if (!deferredCommand) {
+    return;
+  }
+
+  const adminSettings = settings.admin;
+  const commandName = deferredCommand.commandName;
+
+  if (commandName === 'mcp' && adminSettings?.mcp?.enabled === false) {
+    debugLogger.error('Error: MCP is disabled by your admin.');
+    await runExitCleanup();
+    process.exit(ExitCodes.FATAL_CONFIG_ERROR);
+  }
+
+  if (
+    commandName === 'extensions' &&
+    adminSettings?.extensions?.enabled === false
+  ) {
+    debugLogger.error('Error: Extensions are disabled by your admin.');
+    await runExitCleanup();
+    process.exit(ExitCodes.FATAL_CONFIG_ERROR);
+  }
+
+  if (commandName === 'skills' && adminSettings?.skills?.enabled === false) {
+    debugLogger.error('Error: Agent skills are disabled by your admin.');
+    await runExitCleanup();
+    process.exit(ExitCodes.FATAL_CONFIG_ERROR);
+  }
+
+  await deferredCommand.handler(deferredCommand.argv);
+  await runExitCleanup();
+  process.exit(ExitCodes.SUCCESS);
+}
+
+/**
+ * Wraps a command's handler to defer its execution.
+ * It stores the handler and arguments in a singleton `deferredCommand` variable.
+ */
+export function defer<T = object, U = object>(
+  commandModule: CommandModule<T, U>,
+  parentCommandName?: string,
+): CommandModule<T, U> {
+  return {
+    ...commandModule,
+    handler: (argv: ArgumentsCamelCase<U>) => {
+      setDeferredCommand({
+        handler: commandModule.handler as (
+          argv: ArgumentsCamelCase,
+        ) => void | Promise<void>,
+        argv: argv as unknown as ArgumentsCamelCase,
+        commandName: parentCommandName || 'unknown',
+      });
+    },
+  };
+}
diff --git a/packages/cli/src/gemini.tsx b/packages/cli/src/gemini.tsx
index ee35edae63..733444fdba 100644
--- a/packages/cli/src/gemini.tsx
+++ b/packages/cli/src/gemini.tsx
@@ -96,6 +96,7 @@ import { isAlternateBufferEnabled } from './ui/hooks/useAlternateBuffer.js';
 
 import { setupTerminalAndTheme } from './utils/terminalTheme.js';
 import { profiler } from './ui/components/DebugProfiler.js';
+import { runDeferredCommand } from './deferred.js';
 
 const SLOW_RENDER_MS = 200;
 
@@ -410,6 +411,9 @@ export async function main() {
     settings.setRemoteAdminSettings(remoteAdminSettings);
   }
 
+  // Run deferred command now that we have admin settings.
+  await runDeferredCommand(settings.merged);
+
   // hop into sandbox if we are outside and sandboxing is enabled
   if (!process.env['SANDBOX']) {
     const memoryArgs = settings.merged.advanced.autoConfigureMemory