🐛 The file /home/repo/biome.json does not exist in the workspace

[pattrickrice]

Environment information

Details

$ biome rage
CLI:
  Version:                      2.4.11
  Color support:                true

Platform:
  CPU Architecture:             x86_64
  OS:                           linux

Environment:
  BIOME_LOG_PATH:                    unset
  BIOME_LOG_PREFIX_NAME:             unset
  BIOME_LOG_LEVEL:                   unset
  BIOME_LOG_KIND:                    unset
  BIOME_CONFIG_PATH:                 unset
  BIOME_THREADS:                     unset
  BIOME_WATCHER_KIND:                unset
  BIOME_WATCHER_POLLING_INTERVAL:    unset
  NO_COLOR:                     unset
  TERM:                         xterm-256color
  JS_RUNTIME_VERSION:           unset
  JS_RUNTIME_NAME:              unset
  NODE_PACKAGE_MANAGER:         unset

Biome Configuration:
  Status:                       Loaded successfully
  Path:                         biome.json
  Formatter enabled:            true
  Linter enabled:               true
  Assist enabled:               true
  VCS enabled:                  false
  HTML full support enabled:    unset

Workspace:
  Open Documents:               0

What happened?

This is a follow up to #9357. I'm now able to see the file, but it's not clear why I am getting this error. The error is flaky and not consistent. I am only able to reproduce in CI, but not locally which makes this difficult to provide a reproduction.

/home/repo/biome.json internalError/fs  INTERNAL  ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━

  × The file /home/repo/biome.json does not exist in the workspace.
  
  ! This diagnostic was derived from an internal Biome error. Potential bug, please report it if necessary.
  

/home/repo/project/dir/biome.json internalError/fs  INTERNAL  ━━━━━━━━━━━━━━━━━━━

  × The file /home/repo/project/dir/biome.json does not exist in the workspace.
  
  ! This diagnostic was derived from an internal Biome error. Potential bug, please report it if necessary.
  

configuration ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━

  × Biome exited because the configuration resulted in errors. Please fix them.

Expected result

I don't know if this is an error in my set up, or if this is a bug in biome; so, a more verbose error would probably be most helpful. The file exists, why is it not in the workspace? It's interesting that the error is always about biome.jsons.

Code of Conduct

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