diff --git a/packages/core/src/tool/mcp.ts b/packages/core/src/tool/mcp.ts
index 7867fc6571..23d11d06a0 100644
--- a/packages/core/src/tool/mcp.ts
+++ b/packages/core/src/tool/mcp.ts
@@ -6,6 +6,7 @@ import { Effect, Exit, type JsonSchema, Layer, Scope, Semaphore, Stream } from "
 import { makeLocationNode } from "../effect/app-node"
 import { EventV2 } from "../event"
 import { MCP } from "../mcp"
+import { PermissionV2 } from "../permission"
 import { Tool } from "./tool"
 import { Tools } from "./tools"
 import { ToolRegistry } from "./registry"
@@ -21,6 +22,7 @@ export const layer = Layer.effectDiscard(
     const mcp = yield* MCP.Service
     const tools = yield* Tools.Service
     const events = yield* EventV2.Service
+    const permission = yield* PermissionV2.Service
     const scope = yield* Scope.Scope
     const lock = Semaphore.makeUnsafe(1)
     let current: Scope.Closeable | undefined
@@ -41,8 +43,21 @@ export const layer = Layer.effectDiscard(
               properties: schema.properties ?? {},
               additionalProperties: false,
             },
-            execute: (input) =>
+            execute: (input, context) =>
               Effect.gen(function* () {
+                yield* permission.assert({
+                  action: name(tool.server, tool.name),
+                  resources: ["*"],
+                  save: ["*"],
+                  metadata: {},
+                  sessionID: context.sessionID,
+                  agent: context.agent,
+                  source: {
+                    type: "tool",
+                    messageID: context.assistantMessageID,
+                    callID: context.toolCallID,
+                  },
+                })
                 const result = yield* mcp
                   .callTool({
                     server: tool.server,
@@ -72,7 +87,13 @@ export const layer = Layer.effectDiscard(
                       : { type: "file" as const, data: part.data, mime: part.mimeType },
                   ),
                 }
-              }),
+              }).pipe(
+                Effect.mapError((error) =>
+                  error instanceof ToolFailure
+                    ? error
+                    : new ToolFailure({ message: `Unable to execute ${name(tool.server, tool.name)}` }),
+                ),
+              ),
           })
           groups.set(tool.server, group)
         }
@@ -96,5 +117,5 @@ export const layer = Layer.effectDiscard(
 export const node = makeLocationNode({
   name: "mcp-tools",
   layer,
-  deps: [ToolRegistry.toolsNode, MCP.node, EventV2.node],
+  deps: [ToolRegistry.toolsNode, MCP.node, EventV2.node, PermissionV2.node],
 })
diff --git a/packages/core/test/mcp.test.ts b/packages/core/test/mcp.test.ts
index 7c62032784..f52b223dce 100644
--- a/packages/core/test/mcp.test.ts
+++ b/packages/core/test/mcp.test.ts
@@ -1,7 +1,61 @@
 import { describe, expect, test } from "bun:test"
+import { AppNodeBuilder } from "@opencode-ai/core/effect/app-node-builder"
+import { LayerNode } from "@opencode-ai/core/effect/layer-node"
+import { EventV2 } from "@opencode-ai/core/event"
 import { MCP } from "@opencode-ai/core/mcp/index"
 import { MCPClient } from "@opencode-ai/core/mcp/client"
+import { PermissionV2 } from "@opencode-ai/core/permission"
+import { SessionV2 } from "@opencode-ai/core/session"
 import { McpTool } from "@opencode-ai/core/tool/mcp"
+import { ToolRegistry } from "@opencode-ai/core/tool/registry"
+import { ToolOutputStore } from "@opencode-ai/core/tool-output-store"
+import { Deferred, Effect, Fiber, Layer, Stream } from "effect"
+import { testEffect } from "./lib/effect"
+import { settleTool, toolIdentity, waitForTool } from "./lib/tool"
+
+let assertion: Deferred.Deferred<PermissionV2.AssertInput> | undefined
+let decision: Effect.Effect<void, PermissionV2.Error> = Effect.void
+let calls = 0
+
+const mcp = Layer.mock(MCP.Service, {
+  tools: () =>
+    Effect.succeed([
+      new MCP.Tool({
+        server: MCP.ServerName.make("demo"),
+        name: "search",
+        description: "Search",
+        inputSchema: { type: "object", properties: {} },
+      }),
+    ]),
+  callTool: (input) =>
+    Effect.sync(() => {
+      calls += 1
+      return new MCP.ToolResult({
+        server: MCP.ServerName.make(input.server),
+        tool: input.name,
+        isError: false,
+        structured: { ok: true },
+        content: [],
+      })
+    }),
+})
+const permissions = Layer.mock(PermissionV2.Service, {
+  assert: (input) =>
+    Effect.gen(function* () {
+      if (!assertion) return yield* Effect.die("Permission test is not initialized")
+      yield* Deferred.succeed(assertion, input)
+      yield* decision
+    }),
+})
+const events = Layer.mock(EventV2.Service, { subscribe: () => Stream.never })
+const it = testEffect(
+  AppNodeBuilder.build(LayerNode.group([ToolRegistry.node, ToolRegistry.toolsNode, McpTool.node]), [
+    [MCP.node, mcp],
+    [PermissionV2.node, permissions],
+    [EventV2.node, events],
+    [ToolOutputStore.node, ToolOutputStore.nodeWithoutConfig],
+  ]),
+)
 
 describe("MCP errors", () => {
   test("expose useful messages", () => {
@@ -17,3 +71,57 @@ describe("MCP errors", () => {
 test("MCP tool names match V1 sanitization", () => {
   expect(McpTool.name("context 7", "resolve.library/id")).toBe("context_7_resolve_library_id")
 })
+
+it.effect("waits for permission before calling an MCP tool", () =>
+  Effect.gen(function* () {
+    calls = 0
+    assertion = yield* Deferred.make<PermissionV2.AssertInput>()
+    const permission = yield* Deferred.make<void>()
+    decision = Deferred.await(permission)
+    const registry = yield* ToolRegistry.Service
+    yield* waitForTool(registry, "demo_search")
+
+    const fiber = yield* settleTool(registry, {
+      sessionID: SessionV2.ID.make("ses_mcp_permission"),
+      ...toolIdentity,
+      call: { type: "tool-call", id: "call_mcp_permission", name: "demo_search", input: {} },
+    }).pipe(Effect.forkScoped)
+    expect(yield* Deferred.await(assertion)).toEqual({
+      action: "demo_search",
+      resources: ["*"],
+      save: ["*"],
+      metadata: {},
+      sessionID: SessionV2.ID.make("ses_mcp_permission"),
+      agent: toolIdentity.agent,
+      source: {
+        type: "tool",
+        messageID: toolIdentity.assistantMessageID,
+        callID: "call_mcp_permission",
+      },
+    })
+    expect(calls).toBe(0)
+
+    yield* Deferred.succeed(permission, undefined)
+    yield* Fiber.join(fiber)
+    expect(calls).toBe(1)
+  }),
+)
+
+it.effect("does not call MCP when permission is rejected", () =>
+  Effect.gen(function* () {
+    calls = 0
+    assertion = yield* Deferred.make<PermissionV2.AssertInput>()
+    decision = Effect.fail(new PermissionV2.RejectedError())
+    const registry = yield* ToolRegistry.Service
+    yield* waitForTool(registry, "demo_search")
+
+    expect(
+      yield* settleTool(registry, {
+        sessionID: SessionV2.ID.make("ses_mcp_rejected"),
+        ...toolIdentity,
+        call: { type: "tool-call", id: "call_mcp_rejected", name: "demo_search", input: {} },
+      }),
+    ).toEqual({ result: { type: "error", value: "Unable to execute demo_search" } })
+    expect(calls).toBe(0)
+  }),
+)