Claude Cowork Is Out. Here's When You Still Want Claude Desktop.

How to unlock autonomous AI agents in Claude Desktop—with full system access, even on Windows

Everyone is talking about Claude Cowork and how we can finally leave terminals.

Cowork is wild — local file access, long-running operations, high autonomy. But it's Mac-only and lacks direct system access (Cowork runs sandboxed, can't run system commands).

Note: 15 minutes after publishing this post Anthropic made Cowork available to Claude Pro ($20/mo), not just Max ($100/mo) users. Still, only macOS.

Cowork just proved what I've been saying for months: you don't need a terminal for agentic AI work. Claude Desktop + Desktop Commander MCP had these capabilities all along—Anthropic just gave them a better UI.

Claude Desktop just did all this on my Windows PC:

1. Read a spreadsheet of 50 leads, researched each company, and drafted personalized outreach emails

2. Analyzed 47 interview transcripts on my Desktop, extracted opportunities and saved them to a new Notion database

3. Pulled data from 3 CSVs, created financial charts, and assembled a presentation (.pptx)

4. Analyzed audio files (.mp3) in a specific folder, transcribed them (.txt), and renamed files based on those transcripts

5. Installed Docker and then ran a new n8n instance - impossible with Cowork alone

6. Opened Gemini, asked it to generate a cyberpunk wallpaper, and set it as my wallpaper - impossible with Cowork alone

7. Visualized files from my desktop (an artifact + .xlsx)

8. Extracted images from a PDF

9. Scanned my Downloads folder, renamed files based on content, and organized into folders

10. Resized 278 product screenshots, added watermarks, and added the date to the file name

11. Analyzed GitHub history and wrote release notes for customers (.md + .pdf)

In this issue:

1. Examples of What You Can Do Today With Claude Desktop

2. Specific Claude Extensions I’ve Used and How to Configure Them (work also with Cowork)

3. My Custom Claude Desktop Instructions for an Agentic Behavior on Windows

Let’s dive in.

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1. Examples of What You Can Do Today With Claude Desktop

Example 1: Draft 50 personalized outreach emails based on leads.csv

Prompt:

Analyze a spreadsheet with 50 leads in C:\Users\Dell\Desktop\Product Cases\Leads, research each company, and draft personalized outreach emails in my Gmail.

Results:

Example 2: Analyze interview transcripts, extract opportunities, and save them to Notion

Prompt:

Analyze ~50 interview transcripts in C:\Users\Dell\Desktop\Product Cases\Transcripts, aggregate opportunities:
• Title
• Description
• Importance (0-1)
• Satisfaction (0-1)
• Opportunity score by Dan Olsen (Importance * 1-Satisfaction)
• # of users affected

Next, save them in my Notion collection as a new database under [url]

Results (I added bars manually):

Example 3: Pull financial data from csv files, assemble a presentation (.pptx), and send it by email

Prompt:

Analyze the CSV files in C:\Users\Dell\Desktop\Product Cases\CSVs (costs.csv, customers.csv, sales.csv) and create a PowerPoint presentation with the following reports:

1. Customer Acquisition & Profitability
2. Revenue Growth & Churn Analysis
3. Operational Efficiency & Profitability

Include charts. Email the finished presentation to pawel@productcompass.pm

Results:

Example 4: Analyze recordings (.mp3), transcribe them (.txt), and rename based on those transcripts

Prompt:

Analyze interview recordings (mp3) in C:\Users\Dell\Desktop\Transcribe and transcribe them to .txt (use the same file name).

Finally, rename all files based on the beginning of the transcript.

Results:

Example 5: Install Docker and run a new n8n instance

Prompt:

Configure a new Docker container with a free n8n edition and start it

Results:

Example 6: Use Nano Banana to create and apply a new desktop wallpaper

Prompt:

Go to https://gemini.google.com/app
Generate a cyberpunk desktop background with Nano Banana
Set it as my desktop background

Results (note that the agent learned to never ask for permission again):

Example 7: Analyze video files and visualize their distribution

Prompt:

Find all video files on my desktop. Visualize their distribution and size.

Results:

Example 8: Extract images from a PDF

Prompt:

Extract images from C:\Users\Dell\Downloads\Documents\INVITE.pdf and save them in C:\Users\Dell\Desktop\PDF Images

Results and the process:

Example 9: Scan the Downloads folder and organize files into folders

Prompt:

Scan my Downloads folder, rename files based on content, and organize into folders by file type. Optimize for performance. Finally, summarize what you did.

Results:

Example 10: Resize product screenshots, add watermarks, and rename by date

Prompt:

Analyze screenshots in C:\Users\Dell\Downloads\Screenshots. 

Next: 
1. Copy them to \Modified
2. Resize to no more than 800x600 px
3. Add a white, semi-transparent watermark "The Product Compass" in the middle
4. Add creation date as a file prefix ("yyyy-MM-dd ")

Results and the process:

Example 11: Analyze GitHub history and write release notes for customers

Prompt 1:

Analyze GitHub history from the last 3 months using GitHub MCP for the main branch in /phuryn/cred-craft-forge-60/  (Accredia)

Write short release notes for customers as .md file on my desktop.

Prompt 2:

No, convert it to PDF

Results and the process:

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2. Specific Claude Extensions I’ve Used and How to Configure Them

When working with Claude Desktop, you need to enable certain extensions yourself - but they're valuable to Cowork users too!

Desktop Commander MCP

The most important one is Desktop Commander MCP, that allows Claude to interact with your files and run real shell scripts (e.g., PowerShell). You can enable it here:

On macOS, a similar connector is called “Control your Mac.”

Claude in Chrome

This extension allows Claude Desktop or Cowork to control your browser and fully impersonate you. I’ve used it in Example 6 to generate a wallpaper with Gemini and Nano Banana.

In its settings, you can approve operations for specific domains, so Claude won’t ask you for permission before taking action.

More: https://claude.com/chrome

Claude Built-in Connectors

One of the examples I presented involved Notion. This and many other connectors are available in the Claude catalogue and are easy to configure:

Some of them, especially Google products, provide read-only access. Many other products do not appear in that catalogue. You can fix that with MCP servers.

Custom MCP Servers

I’ve used the following MCP servers (can be used with Claude Desktop and Cowork):

• ElevenLabs MCP for audio translation. It can also generate voice or translate audio files. More: https://github.com/elevenlabs/elevenlabs-mcp An alternative is asking Claude to find and install a free, local library.

• Gmail MCP to draft and send emails. This is not possible with standard Gmail connector (read-only). More info and instruction (requires several steps): https://github.com/GongRzhe/Gmail-MCP-Server

• GitHub MCP to analyze the history of codebase changes. More: https://github.com/github/github-mcp-server

You can configure them after clicking Developer > Open App Config File… in Claude Desktop. You can start with my working configuration. Use your API tokens:

{
  "mcpServers": {
    "playwright": {
      "command": "npx",
      "args": [
        "@playwright/mcp@latest"
      ]
    },
    "ElevenLabs": {
      "command": "uvx",
      "args": [
        "elevenlabs-mcp"
      ],
      "env": {
        "ELEVENLABS_API_KEY": "sk_********"
      }
    },
    "gmail": {
      "command": "npx",
      "args": [
        "@gongrzhe/server-gmail-autoauth-mcp"
      ]
    },
    "github": {
      "command": "C:/******/github-mcp-server.exe",
      "args": ["stdio"],
      "env": {
        "GITHUB_PERSONAL_ACCESS_TOKEN": "********"
      }
    }
  }
}

I didn’t know how to configure GitHub. I asked Claude for help and it came up with the correct format based on documentation.

You can find hundreds of other MCP servers here: https://github.com/modelcontextprotocol/servers

Or just ask Claude to find them, install, and configure. With the Desktop Commander MCP, it can change its own configuration!

Remember to set permissions

After enabling a connector or an MCP server, set permissions, so you don’t have to approve every action.

For example, my Gmail MCP should be able to draft emails, but I want to approve every email. I should change this setting:

Custom skills

You can also explore custom skills. Claude can help you create them. We will cover Skills another time.

More: https://support.claude.com/en/articles/12512198-how-to-create-custom-skills

Custom files

Just like in any Claude project, you can add custom files (e.g., a PRD template) that agents will use when working on your tasks.

This works similarly when setting context for Cowork.

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3. My Custom Claude Desktop Instructions for Agentic Behavior on Windows

While Claude Cowork is a game-changer, it's currently available only to macOS users.

Meanwhile, Claude Desktop + Desktop Commander MCP gives you:

• async, long-running work

• full file access

• Claude in Chrome

Unlike Cowork, it can also execute scripts directly on your machine (not in a sandbox) and run system commands. That's how it was able to install Docker and run an n8n container, configure its own MCP, and change my wallpaper.

Claude Cowork feels different because it ships with a preset and a better UX.

After configuring MCP servers, the main thing missing is an explicit execution contract: custom instructions that encourage autonomy and persist progress for jobs and tasks.

To fix that, I created a dedicated Claude project with a set of custom instructions.

Notes:

• This setup was tested on Windows OS.

• The framework supports multiple autonomous agents working in parallel. But on Windows, Claude Desktop simply doesn’t support multiple chats with MCP server calls well. You can work with one chat thread and use the web interface for other queries. In case of any issues, type /resume so that the agent can continue. I hope this will be fixed soon.

The extensions from point 2 work. But without custom instructions, they're one-shot—Claude asks questions, waits for approval, loses context when you close the chat.

The custom instructions below turn Claude Desktop into a persistent autonomous agent that:

• Runs 30-60 minutes without interruption

• Resumes exactly where it left off after a crash or reboot

• Logs lessons and gets smarter across jobs

This is the execution contract that makes Claude Desktop feel like Cowork on Windows 👇