fix: Use manifestVersion from CLI during manifest generation

[aklinker1]

Overview

During manifest generation, wxt.config.maniifestVersion is the source of truth - if an extension uses wxt --mv3, but has manifest: { manifest_version: 2 } in their config file, we should always use the manifest version from the wxt.config object, not the manifest object we're in the middle of generating.

In theory, they should always be the same, but I could see some funky edge case where someone is modifying the manifest.version through hooks.

Manual Testing

Run tests:

bun run --cwd packages/wxt test

Related Issue

Noticed we were using different sources for the manifest version while reviewing #2010 today.

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commit: b1a17c3

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 79.86%. Comparing base (a2212f7) to head (b1a17c3).
⚠️ Report is 1 commits behind head on main.

Additional details and impacted files

@@            Coverage Diff             @@
##             main    #2306      +/-   ##
==========================================
+ Coverage   79.70%   79.86%   +0.15%     
==========================================
  Files         130      130              
  Lines        3804     3804              
  Branches      861      861              
==========================================
+ Hits         3032     3038       +6     
+ Misses        688      683       -5     
+ Partials       84       83       -1     

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