diff --git a/apps/server/src/orchestration-v2/Adapters/ClaudeAdapterV2.ts b/apps/server/src/orchestration-v2/Adapters/ClaudeAdapterV2.ts
index d0b63350f1d4e9d3036458b511195af1e1cf7387..1dcfb20723b3e2eb57c95af102f688e2a74fcc6a 100644
--- a/apps/server/src/orchestration-v2/Adapters/ClaudeAdapterV2.ts
+++ b/apps/server/src/orchestration-v2/Adapters/ClaudeAdapterV2.ts
@@ -28,6 +28,8 @@ import {
   type PermissionUpdate,
   type Query as ClaudeQuery,
   type Settings as ClaudeSdkSettings,
+  type SpawnOptions as ClaudeSpawnOptions,
+  type SpawnedProcess as ClaudeSpawnedProcess,
   type SDKAssistantMessage,
   type SDKAPIRetryMessage,
   type SDKMessage,
@@ -39,6 +41,8 @@ import type {
   AskUserQuestionInput,
   WebSearchOutput,
 } from "@anthropic-ai/claude-agent-sdk/sdk-tools";
+// @effect-diagnostics-next-line nodeBuiltinImport:off -- the SDK takes a Node ChildProcess for the CLI.
+import * as NodeChildProcess from "node:child_process";
 import { parseCliArgs } from "@t3tools/shared/cliArgs";
 import { AgentScope } from "@t3tools/shared/AgentScope";
 import * as HostProcess from "@t3tools/shared/HostProcess";
@@ -108,6 +112,7 @@ import { discoverClaudeSkills } from "../../provider/Drivers/ClaudeSkills.ts";
 import { compileClaudeModelSelection } from "../../claudeModelOptions.ts";
 import * as ServerConfig from "../../config.ts";
 import { expandHomePath } from "@t3tools/provider-core/server/pathExpansion";
+import { signalProcessGroup } from "@t3tools/provider-core/server/processGroup";
 import {
   claudeSignedOutMessage,
   makeClaudeEnvironment,
@@ -225,6 +230,37 @@ const CLAUDE_SCRIPT_EXTENSIONS = [".js", ".mjs", ".tsx", ".ts", ".jsx"];
 // mcp_set_servers once each server connected or hit its own 30 s timeout.
 const CLAUDE_MCP_REGISTRATION_TIMEOUT = "90 seconds";
 
+/**
+ * Starts the Claude CLI as the leader of its own process group. When the CLI
+ * exits it stops the MCP servers it started, but not their children: a
+ * plugin's `bun run start` wrapper dies and its `bun server.ts` keeps running,
+ * writing to a pipe nobody reads (#3089). Those stay in the CLI's group, so
+ * the rest of the group gets SIGKILL once the CLI exits for any reason.
+ * Commands the agent runs through its Bash tool start their own groups, so
+ * background jobs it launched are not part of this.
+ *
+ * The SDK reads stderr only from its own spawn, where it redacts credentials
+ * before adding the tail to exit errors. Here stderr is dropped instead, so
+ * exit errors carry only the code or signal.
+ */
+function spawnClaudeProcessGroup(options: ClaudeSpawnOptions): ClaudeSpawnedProcess {
+  const child = NodeChildProcess.spawn(options.command, options.args, {
+    cwd: options.cwd,
+    env: options.env,
+    signal: options.signal,
+    stdio: ["pipe", "pipe", "ignore"],
+    detached: true,
+  });
+  child.once("exit", () => {
+    try {
+      signalProcessGroup(child.pid ?? 0, "SIGKILL");
+    } catch {
+      // The group is already empty.
+    }
+  });
+  return child;
+}
+
 export const ClaudeProviderCapabilitiesV2 = {
   sessions: {
     supportsMultipleProviderThreadsPerSession: false,
@@ -661,6 +697,7 @@ export const layerQueryRunner: Layer.Layer<
     const crypto = yield* Crypto.Crypto;
     const { native: nativeEventLogger } = yield* ProviderEventLoggers.ProviderEventLoggers;
     const agentScope = yield* AgentScope;
+    const platform = yield* HostProcess.Platform;
 
     return ClaudeAgentSdkQueryRunner.of({
       allocateSessionId: crypto
@@ -689,9 +726,8 @@ export const layerQueryRunner: Layer.Layer<
         // of the environment every command the agent runs inherits.
         const { mcpServers, ...queryOptions } = input.options;
         // The SDK spawns a native binary as `path ...executableArgs ...sdkArgs`,
-        // which lets the agent scope wrapper go in front of the CLI while the
-        // SDK keeps its own stderr capture and exit reporting. The SDK runs a
-        // script entry through node instead, so those launch unwrapped.
+        // which lets the agent scope wrapper go in front of the CLI. The SDK
+        // runs a script entry through node instead, so those launch unwrapped.
         const binaryPath = queryOptions.pathToClaudeCodeExecutable;
         const launch =
           binaryPath === undefined ||
@@ -712,11 +748,23 @@ export const layerQueryRunner: Layer.Layer<
                 pathToClaudeCodeExecutable: launch.command,
                 executableArgs: [...launch.args, ...(queryOptions.executableArgs ?? [])],
               };
+        // A spawner the caller passed keeps its process. Windows has no process
+        // groups, so there the SDK spawns the CLI itself.
+        const spawnClaudeCodeProcess =
+          options.spawnClaudeCodeProcess ??
+          (platform === "win32" ? undefined : spawnClaudeProcessGroup);
         // The CLI is running once query() returns, so it is closed if anything
         // before the session is handed out fails or is interrupted.
         const queryRuntime = yield* Effect.uninterruptibleMask((restore) =>
           Effect.try({
-            try: () => query({ prompt, options }),
+            try: () =>
+              query({
+                prompt,
+                options:
+                  spawnClaudeCodeProcess === undefined
+                    ? options
+                    : { ...options, spawnClaudeCodeProcess },
+              }),
             catch: (cause) => queryRunnerError(cause, "query"),
           }).pipe(
             Effect.tap((queryRuntime) =>
diff --git a/apps/server/src/orchestration-v2/Adapters/ClaudeAgentSdkQueryRunner.test.ts b/apps/server/src/orchestration-v2/Adapters/ClaudeAgentSdkQueryRunner.test.ts
index b782ad676423c68a55a1cd781af37759307d2e3f..2533e356e8f9560d2f14cdbebc013a1c00968012 100644
--- a/apps/server/src/orchestration-v2/Adapters/ClaudeAgentSdkQueryRunner.test.ts
+++ b/apps/server/src/orchestration-v2/Adapters/ClaudeAgentSdkQueryRunner.test.ts
@@ -1,6 +1,11 @@
+// @effect-diagnostics nodeBuiltinImport:off -- the fake CLI and its leftover child are real processes.
 import * as ClaudeSdk from "@anthropic-ai/claude-agent-sdk";
+import * as NodeChildProcess from "node:child_process";
+import * as NodeFS from "node:fs";
+import * as NodeOS from "node:os";
+import * as NodePath from "node:path";
 import * as NodeServices from "@effect/platform-node/NodeServices";
-import { assert, it } from "@effect/vitest";
+import { assert, describe, it } from "@effect/vitest";
 import { ProviderSessionId, ThreadId } from "@t3tools/contracts";
 import * as Effect from "effect/Effect";
 import * as Exit from "effect/Exit";
@@ -8,6 +13,7 @@ import * as Layer from "effect/Layer";
 import { vi } from "vite-plus/test";
 
 import { ProviderEventLoggers } from "@t3tools/provider-core/server/ProviderEventLoggers";
+import * as HostProcess from "@t3tools/shared/HostProcess";
 import {
   CLAUDE_AGENT_SDK_QUERY_PROTOCOL,
   ClaudeAgentSdkQueryRunner,
@@ -78,3 +84,76 @@ it.effect("logs successful task stops for replay and omits failed stops", () =>
     );
   }).pipe(Effect.provide(NodeServices.layer)),
 );
+
+const realQueryRunner = layerQueryRunner.pipe(
+  Layer.provide(
+    Layer.succeed(ProviderEventLoggers, {
+      native: undefined,
+      canonical: undefined,
+    }),
+  ),
+  Layer.provide(NodeServices.layer),
+);
+
+/** Writes an executable stand-in for the Claude CLI into a fresh directory. */
+function fakeClaudeCli(script: string): string {
+  const dir = NodeFS.mkdtempSync(NodePath.join(NodeOS.tmpdir(), "t3-claude-cli-"));
+  const cli = NodePath.join(dir, "claude");
+  NodeFS.writeFileSync(cli, `#!/bin/sh\n${script}\n`, { mode: 0o755 });
+  return cli;
+}
+
+const openFakeCli = (cli: string) =>
+  Effect.gen(function* () {
+    const runner = yield* ClaudeAgentSdkQueryRunner;
+    return yield* runner.open({
+      threadId: ThreadId.make("thread-fake-cli"),
+      providerSessionId: ProviderSessionId.make("session-fake-cli"),
+      options: {
+        sessionId: "native-session-fake-cli",
+        model: "claude-sonnet-4-6",
+        tools: [],
+        permissionMode: "default",
+        pathToClaudeCodeExecutable: cli,
+      },
+    });
+  });
+
+describe.skipIf(HostProcess.Platform.defaultValue() === "win32")("Claude CLI process", () => {
+  // The CLI stops the MCP servers it started, but not their children: a
+  // plugin's `bun server.ts` outlives its `bun run` wrapper (#3089). The fake
+  // CLI leaves a child running the same way. The child holds a FIFO open, so
+  // its death reads as end-of-file here, with no polling.
+  it.effect("stops what the CLI left running when the session closes", () =>
+    Effect.gen(function* () {
+      const cli = fakeClaudeCli(
+        [
+          'dir=$(dirname "$0")',
+          'sleep 600 > "$dir/alive" &',
+          'echo $! > "$dir/leftover.pid"',
+          "cat > /dev/null",
+        ].join("\n"),
+      );
+      const dir = NodePath.dirname(cli);
+      NodeChildProcess.execFileSync("mkfifo", [NodePath.join(dir, "alive")]);
+      yield* Effect.addFinalizer(() =>
+        Effect.sync(() => {
+          // Only does anything when the test fails: do not leak its child.
+          try {
+            process.kill(Number(NodeFS.readFileSync(NodePath.join(dir, "leftover.pid"), "utf8")));
+          } catch {}
+          NodeFS.rmSync(dir, { recursive: true, force: true });
+        }),
+      );
+      const alive = NodeFS.createReadStream(NodePath.join(dir, "alive"));
+      const leftoverStarted = new Promise<void>((resolve) => alive.once("open", () => resolve()));
+      const leftoverStopped = new Promise<void>((resolve) => alive.once("close", () => resolve()));
+      alive.resume();
+
+      const session = yield* openFakeCli(cli);
+      yield* Effect.promise(() => leftoverStarted);
+      yield* session.close;
+      yield* Effect.promise(() => leftoverStopped);
+    }).pipe(Effect.provide(realQueryRunner)),
+  );
+});