diff --git a/bun.lock b/bun.lock
index 99d35168f30..538712601d5 100644
--- a/bun.lock
+++ b/bun.lock
@@ -18,14 +18,12 @@
         "prettier": "3.6.2",
         "semver": "^7.6.0",
         "sst": "3.17.23",
-        "stackback": "0.0.2",
         "turbo": "2.5.6",
-        "why-is-node-running": "2.2.2",
       },
     },
     "packages/app": {
       "name": "@opencode-ai/app",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@kobalte/core": "catalog:",
         "@opencode-ai/sdk": "workspace:*",
@@ -75,7 +73,7 @@
     },
     "packages/console/app": {
       "name": "@opencode-ai/console-app",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@cloudflare/vite-plugin": "1.15.2",
         "@ibm/plex": "6.4.1",
@@ -109,7 +107,7 @@
     },
     "packages/console/core": {
       "name": "@opencode-ai/console-core",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@aws-sdk/client-sts": "3.782.0",
         "@jsx-email/render": "1.1.1",
@@ -136,7 +134,7 @@
     },
     "packages/console/function": {
       "name": "@opencode-ai/console-function",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@ai-sdk/anthropic": "2.0.0",
         "@ai-sdk/openai": "2.0.2",
@@ -160,7 +158,7 @@
     },
     "packages/console/mail": {
       "name": "@opencode-ai/console-mail",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@jsx-email/all": "2.2.3",
         "@jsx-email/cli": "1.4.3",
@@ -184,7 +182,7 @@
     },
     "packages/desktop": {
       "name": "@opencode-ai/desktop",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@opencode-ai/app": "workspace:*",
         "@opencode-ai/ui": "workspace:*",
@@ -215,7 +213,7 @@
     },
     "packages/enterprise": {
       "name": "@opencode-ai/enterprise",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@opencode-ai/ui": "workspace:*",
         "@opencode-ai/util": "workspace:*",
@@ -244,7 +242,7 @@
     },
     "packages/function": {
       "name": "@opencode-ai/function",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@octokit/auth-app": "8.0.1",
         "@octokit/rest": "catalog:",
@@ -260,7 +258,7 @@
     },
     "packages/opencode": {
       "name": "opencode",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "bin": {
         "opencode": "./bin/opencode",
       },
@@ -364,7 +362,7 @@
     },
     "packages/plugin": {
       "name": "@opencode-ai/plugin",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@opencode-ai/sdk": "workspace:*",
         "zod": "catalog:",
@@ -384,7 +382,7 @@
     },
     "packages/sdk/js": {
       "name": "@opencode-ai/sdk",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "devDependencies": {
         "@hey-api/openapi-ts": "0.90.10",
         "@tsconfig/node22": "catalog:",
@@ -395,7 +393,7 @@
     },
     "packages/slack": {
       "name": "@opencode-ai/slack",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@opencode-ai/sdk": "workspace:*",
         "@slack/bolt": "^3.17.1",
@@ -408,7 +406,7 @@
     },
     "packages/ui": {
       "name": "@opencode-ai/ui",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@kobalte/core": "catalog:",
         "@opencode-ai/sdk": "workspace:*",
@@ -450,7 +448,7 @@
     },
     "packages/util": {
       "name": "@opencode-ai/util",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "zod": "catalog:",
       },
@@ -461,7 +459,7 @@
     },
     "packages/web": {
       "name": "@opencode-ai/web",
-      "version": "1.1.43",
+      "version": "1.1.45",
       "dependencies": {
         "@astrojs/cloudflare": "12.6.3",
         "@astrojs/markdown-remark": "6.3.1",
@@ -3901,7 +3899,7 @@
 
     "which-typed-array": ["which-typed-array@1.1.20", "", { "dependencies": { "available-typed-arrays": "^1.0.7", "call-bind": "^1.0.8", "call-bound": "^1.0.4", "for-each": "^0.3.5", "get-proto": "^1.0.1", "gopd": "^1.2.0", "has-tostringtag": "^1.0.2" } }, "sha512-LYfpUkmqwl0h9A2HL09Mms427Q1RZWuOHsukfVcKRq9q95iQxdw0ix1JQrqbcDR9PH1QDwf5Qo8OZb5lksZ8Xg=="],
 
-    "why-is-node-running": ["why-is-node-running@2.2.2", "", { "dependencies": { "siginfo": "^2.0.0", "stackback": "0.0.2" }, "bin": { "why-is-node-running": "cli.js" } }, "sha512-6tSwToZxTOcotxHeA+qGCq1mVzKR3CwcJGmVcY+QE8SHy6TnpFnh8PAvPNHYr7EcuVeG0QSMxtYCuO1ta/G/oA=="],
+    "why-is-node-running": ["why-is-node-running@3.2.2", "", { "bin": { "why-is-node-running": "cli.js" } }, "sha512-NKUzAelcoCXhXL4dJzKIwXeR8iEVqsA0Lq6Vnd0UXvgaKbzVo4ZTHROF2Jidrv+SgxOQ03fMinnNhzZATxOD3A=="],
 
     "widest-line": ["widest-line@5.0.0", "", { "dependencies": { "string-width": "^7.0.0" } }, "sha512-c9bZp7b5YtRj2wOe6dlj32MK+Bx/M/d+9VB2SHM1OtsUHR0aV0tdP6DWh/iMt0kWi1t5g1Iudu6hQRNd1A4PVA=="],
 
@@ -4389,8 +4387,6 @@
 
     "opencode/@ai-sdk/openai-compatible": ["@ai-sdk/openai-compatible@1.0.30", "", { "dependencies": { "@ai-sdk/provider": "2.0.1", "@ai-sdk/provider-utils": "3.0.20" }, "peerDependencies": { "zod": "^3.25.76 || ^4.1.8" } }, "sha512-thubwhRtv9uicAxSWwNpinM7hiL/0CkhL/ymPaHuKvI494J7HIzn8KQZQ2ymRz284WTIZnI7VMyyejxW4RMM6w=="],
 
-    "opencode/why-is-node-running": ["why-is-node-running@3.2.2", "", { "bin": { "why-is-node-running": "cli.js" } }, "sha512-NKUzAelcoCXhXL4dJzKIwXeR8iEVqsA0Lq6Vnd0UXvgaKbzVo4ZTHROF2Jidrv+SgxOQ03fMinnNhzZATxOD3A=="],
-
     "opencontrol/@modelcontextprotocol/sdk": ["@modelcontextprotocol/sdk@1.6.1", "", { "dependencies": { "content-type": "^1.0.5", "cors": "^2.8.5", "eventsource": "^3.0.2", "express": "^5.0.1", "express-rate-limit": "^7.5.0", "pkce-challenge": "^4.1.0", "raw-body": "^3.0.0", "zod": "^3.23.8", "zod-to-json-schema": "^3.24.1" } }, "sha512-oxzMzYCkZHMntzuyerehK3fV6A2Kwh5BD6CGEJSVDU2QNEhfLOptf2X7esQgaHZXHZY0oHmMsOtIDLP71UJXgA=="],
 
     "opencontrol/@tsconfig/bun": ["@tsconfig/bun@1.0.7", "", {}, "sha512-udGrGJBNQdXGVulehc1aWT73wkR9wdaGBtB6yL70RJsqwW/yJhIg6ZbRlPOfIUiFNrnBuYLBi9CSmMKfDC7dvA=="],
diff --git a/packages/app/package.json b/packages/app/package.json
index 87ca7931c55..8459172e7cf 100644
--- a/packages/app/package.json
+++ b/packages/app/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/app",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "description": "",
   "type": "module",
   "exports": {
diff --git a/packages/console/app/package.json b/packages/console/app/package.json
index b10593a8fa5..84d45d3a7b1 100644
--- a/packages/console/app/package.json
+++ b/packages/console/app/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/console-app",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "type": "module",
   "license": "MIT",
   "scripts": {
diff --git a/packages/console/core/package.json b/packages/console/core/package.json
index 111390efbe7..38811d4de29 100644
--- a/packages/console/core/package.json
+++ b/packages/console/core/package.json
@@ -1,7 +1,7 @@
 {
   "$schema": "https://json.schemastore.org/package.json",
   "name": "@opencode-ai/console-core",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "private": true,
   "type": "module",
   "license": "MIT",
diff --git a/packages/console/function/package.json b/packages/console/function/package.json
index c26b4584ded..50acf1567c6 100644
--- a/packages/console/function/package.json
+++ b/packages/console/function/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/console-function",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "$schema": "https://json.schemastore.org/package.json",
   "private": true,
   "type": "module",
diff --git a/packages/console/mail/package.json b/packages/console/mail/package.json
index 564a7140cc1..902dd447bed 100644
--- a/packages/console/mail/package.json
+++ b/packages/console/mail/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/console-mail",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "dependencies": {
     "@jsx-email/all": "2.2.3",
     "@jsx-email/cli": "1.4.3",
diff --git a/packages/desktop/package.json b/packages/desktop/package.json
index c1f330ce930..1b01f8a6f2b 100644
--- a/packages/desktop/package.json
+++ b/packages/desktop/package.json
@@ -1,7 +1,7 @@
 {
   "name": "@opencode-ai/desktop",
   "private": true,
-  "version": "1.1.43",
+  "version": "1.1.45",
   "type": "module",
   "license": "MIT",
   "scripts": {
diff --git a/packages/enterprise/package.json b/packages/enterprise/package.json
index 03016c1c58f..2091e685749 100644
--- a/packages/enterprise/package.json
+++ b/packages/enterprise/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/enterprise",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "private": true,
   "type": "module",
   "license": "MIT",
diff --git a/packages/extensions/zed/extension.toml b/packages/extensions/zed/extension.toml
index eaa882b65bd..283036bf5b1 100644
--- a/packages/extensions/zed/extension.toml
+++ b/packages/extensions/zed/extension.toml
@@ -1,7 +1,7 @@
 id = "opencode"
 name = "OpenCode"
 description = "The open source coding agent."
-version = "1.1.43"
+version = "1.1.45"
 schema_version = 1
 authors = ["Anomaly"]
 repository = "https://github.com/anomalyco/opencode"
@@ -11,26 +11,26 @@ name = "OpenCode"
 icon = "./icons/opencode.svg"
 
 [agent_servers.opencode.targets.darwin-aarch64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.43/opencode-darwin-arm64.zip"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.45/opencode-darwin-arm64.zip"
 cmd = "./opencode"
 args = ["acp"]
 
 [agent_servers.opencode.targets.darwin-x86_64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.43/opencode-darwin-x64.zip"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.45/opencode-darwin-x64.zip"
 cmd = "./opencode"
 args = ["acp"]
 
 [agent_servers.opencode.targets.linux-aarch64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.43/opencode-linux-arm64.tar.gz"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.45/opencode-linux-arm64.tar.gz"
 cmd = "./opencode"
 args = ["acp"]
 
 [agent_servers.opencode.targets.linux-x86_64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.43/opencode-linux-x64.tar.gz"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.45/opencode-linux-x64.tar.gz"
 cmd = "./opencode"
 args = ["acp"]
 
 [agent_servers.opencode.targets.windows-x86_64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.43/opencode-windows-x64.zip"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.1.45/opencode-windows-x64.zip"
 cmd = "./opencode.exe"
 args = ["acp"]
diff --git a/packages/function/package.json b/packages/function/package.json
index 4a9e82def5e..9746d11dccf 100644
--- a/packages/function/package.json
+++ b/packages/function/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/function",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "$schema": "https://json.schemastore.org/package.json",
   "private": true,
   "type": "module",
diff --git a/packages/opencode/package.json b/packages/opencode/package.json
index bd77afa2e8c..ab28687d358 100644
--- a/packages/opencode/package.json
+++ b/packages/opencode/package.json
@@ -1,6 +1,6 @@
 {
   "$schema": "https://json.schemastore.org/package.json",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "name": "opencode",
   "type": "module",
   "license": "MIT",
diff --git a/packages/opencode/src/cli/cmd/debug/agent.ts b/packages/opencode/src/cli/cmd/debug/agent.ts
index fe300348597..3ea696eb3b1 100644
--- a/packages/opencode/src/cli/cmd/debug/agent.ts
+++ b/packages/opencode/src/cli/cmd/debug/agent.ts
@@ -1,6 +1,7 @@
 import { EOL } from "os"
 import { basename } from "path"
 import { Agent } from "../../../agent/agent"
+import { Config } from "../../../config/config"
 import { Provider } from "../../../provider/provider"
 import { Session } from "../../../session"
 import type { MessageV2 } from "../../../session/message-v2"
@@ -11,6 +12,7 @@ import { PermissionNext } from "../../../permission/next"
 import { iife } from "../../../util/iife"
 import { bootstrap } from "../../bootstrap"
 import { cmd } from "../cmd"
+import { MCP } from "../../../mcp"
 
 export const AgentCommand = cmd({
   command: "agent <name>",
@@ -40,8 +42,20 @@ export const AgentCommand = cmd({
         )
         process.exit(1)
       }
-      const availableTools = await getAvailableTools(agent)
-      const resolvedTools = await resolveTools(agent, availableTools)
+      const cfg = await Config.get()
+      const mcpConfig = cfg.mcp ?? {}
+      const toolConfig = {
+        global: cfg.tools ?? {},
+        agent: cfg.agent?.[agentName]?.tools ?? {},
+      }
+      const [availableTools, mcpToolIDs] = await Promise.all([
+        getAvailableTools(agent),
+        getAvailableMcpToolIDs(mcpConfig),
+      ])
+      const resolvedTools = await resolveTools(agent, [
+        ...availableTools.map((tool) => tool.id),
+        ...mcpToolIDs,
+      ])
       const toolID = args.tool as string | undefined
       if (toolID) {
         const tool = availableTools.find((item) => item.id === toolID)
@@ -63,6 +77,8 @@ export const AgentCommand = cmd({
       const output = {
         ...agent,
         tools: resolvedTools,
+        mcpConfig,
+        toolConfig,
       }
       process.stdout.write(JSON.stringify(output, null, 2) + EOL)
     })
@@ -74,14 +90,20 @@ async function getAvailableTools(agent: Agent.Info) {
   return ToolRegistry.tools(model, agent)
 }
 
-async function resolveTools(agent: Agent.Info, availableTools: Awaited<ReturnType<typeof getAvailableTools>>) {
-  const disabled = PermissionNext.disabled(
-    availableTools.map((tool) => tool.id),
-    agent.permission,
-  )
+async function getAvailableMcpToolIDs(mcpConfig: Config.Info["mcp"] | undefined) {
+  if (!mcpConfig || Object.keys(mcpConfig).length === 0) return []
+  // Note: MCP.tools() only returns tools from *connected* MCP clients. This means that
+  // even if mcpConfig contains configured MCP servers, this may return an empty set
+  // when none of those servers are currently connected.
+  const tools = await MCP.tools()
+  return Object.keys(tools)
+}
+
+async function resolveTools(agent: Agent.Info, toolIDs: string[]) {
+  const disabled = PermissionNext.disabled(toolIDs, agent.permission)
   const resolved: Record<string, boolean> = {}
-  for (const tool of availableTools) {
-    resolved[tool.id] = !disabled.has(tool.id)
+  for (const toolID of toolIDs) {
+    resolved[toolID] = !disabled.has(toolID)
   }
   return resolved
 }
diff --git a/packages/opencode/src/session/llm.ts b/packages/opencode/src/session/llm.ts
index 4c4f4114a28..0c765210452 100644
--- a/packages/opencode/src/session/llm.ts
+++ b/packages/opencode/src/session/llm.ts
@@ -1,4 +1,3 @@
-import os from "os"
 import { Installation } from "@/installation"
 import { Provider } from "@/provider/provider"
 import { Log } from "@/util/log"
@@ -9,7 +8,6 @@ import {
   type StreamTextResult,
   type Tool,
   type ToolSet,
-  extractReasoningMiddleware,
   tool,
   jsonSchema,
 } from "ai"
@@ -261,7 +259,6 @@ export namespace LLM {
               return args.params
             },
           },
-          extractReasoningMiddleware({ tagName: "think", startWithReasoning: false }),
         ],
       }),
       experimental_telemetry: {
diff --git a/packages/plugin/package.json b/packages/plugin/package.json
index 19077d786d6..9e9232a4da7 100644
--- a/packages/plugin/package.json
+++ b/packages/plugin/package.json
@@ -1,7 +1,7 @@
 {
   "$schema": "https://json.schemastore.org/package.json",
   "name": "@opencode-ai/plugin",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "type": "module",
   "license": "MIT",
   "scripts": {
diff --git a/packages/sdk/js/package.json b/packages/sdk/js/package.json
index e929d628943..6b550512dea 100644
--- a/packages/sdk/js/package.json
+++ b/packages/sdk/js/package.json
@@ -1,7 +1,7 @@
 {
   "$schema": "https://json.schemastore.org/package.json",
   "name": "@opencode-ai/sdk",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "type": "module",
   "license": "MIT",
   "scripts": {
diff --git a/packages/slack/package.json b/packages/slack/package.json
index decfd834a74..fbcccac399a 100644
--- a/packages/slack/package.json
+++ b/packages/slack/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/slack",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "type": "module",
   "license": "MIT",
   "scripts": {
diff --git a/packages/ui/package.json b/packages/ui/package.json
index 2e7a2cfefdf..5fde0960aca 100644
--- a/packages/ui/package.json
+++ b/packages/ui/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/ui",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "type": "module",
   "license": "MIT",
   "exports": {
diff --git a/packages/util/package.json b/packages/util/package.json
index f76106701b2..9a3eb8f7d33 100644
--- a/packages/util/package.json
+++ b/packages/util/package.json
@@ -1,6 +1,6 @@
 {
   "name": "@opencode-ai/util",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "private": true,
   "type": "module",
   "license": "MIT",
diff --git a/packages/web/package.json b/packages/web/package.json
index 0f601ba248f..06ab5ef4e95 100644
--- a/packages/web/package.json
+++ b/packages/web/package.json
@@ -2,7 +2,7 @@
   "name": "@opencode-ai/web",
   "type": "module",
   "license": "MIT",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "scripts": {
     "dev": "astro dev",
     "dev:remote": "VITE_API_URL=https://api.opencode.ai astro dev",
diff --git a/packages/web/src/content/docs/agents.mdx b/packages/web/src/content/docs/agents.mdx
index ea1f779cd37..b08e507c3e7 100644
--- a/packages/web/src/content/docs/agents.mdx
+++ b/packages/web/src/content/docs/agents.mdx
@@ -678,3 +678,13 @@ Look for:
 - Dependency vulnerabilities
 - Configuration security issues
 ```
+
+---
+
+## Debug
+
+Using below command to list the agent can use tools (including MCP tool).
+
+```bash
+opencode debug agent plan
+```
diff --git a/packages/web/src/content/docs/tools.mdx b/packages/web/src/content/docs/tools.mdx
index 0fa8d4ffddc..baccaa2d719 100644
--- a/packages/web/src/content/docs/tools.mdx
+++ b/packages/web/src/content/docs/tools.mdx
@@ -324,6 +324,17 @@ MCP (Model Context Protocol) servers allow you to integrate external tools and s
 
 [Learn more](/docs/mcp-servers) about configuring MCP servers.
 
+
+---
+
+## Debug
+
+Using below command to calling tools directly without let LLM model use it.
+
+```bash
+opencode debug agent build --tool glob --params '{pattern: "export*", include: "*.ts"}'
+```
+
 ---
 
 ## Internals
diff --git a/sdks/vscode/package.json b/sdks/vscode/package.json
index 1ffe553c2cd..7c160a454fb 100644
--- a/sdks/vscode/package.json
+++ b/sdks/vscode/package.json
@@ -2,7 +2,7 @@
   "name": "opencode",
   "displayName": "opencode",
   "description": "opencode for VS Code",
-  "version": "1.1.43",
+  "version": "1.1.45",
   "publisher": "sst-dev",
   "repository": {
     "type": "git",