Prepare per default on checkout

[stefanvictora]

Changed

• Changes checkout to prepare the review bundle by default after switching to or cloning a PR/MR source branch, while keeping --prepare accepted for compatibility.
• Keeps --setup as an optional follow-up that runs after checkout and the default prepare step.

Tests

• Adds command-level coverage for default prepare behavior and the --setup flow.

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ℹ️ Review info

⚙️ Run configuration

Configuration used: Organization UI

Review profile: CHILL

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Run ID: 9f0fe20b-7cf6-41c0-af91-6f8decb76f4a

📥 Commits

Reviewing files that changed from the base of the PR and between 4a2fc19 and ca83455.

📒 Files selected for processing (4)

• README.md
• docs/commands.md
• src/cli/commands/checkout.test.ts
• src/cli/commands/checkout.ts

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