Organize import produces warning even when file is ignored

[iamsauravsharma]

Environment information

CLI:
  Version:                      1.9.4
  Color support:                true

Platform:
  CPU Architecture:             aarch64
  OS:                           macos

Environment:
  BIOME_LOG_PATH:               unset
  BIOME_LOG_PREFIX_NAME:        unset
  BIOME_CONFIG_PATH:            unset
  NO_COLOR:                     unset
  TERM:                         "xterm-256color"
  JS_RUNTIME_VERSION:           "v22.11.0"
  JS_RUNTIME_NAME:              "node"
  NODE_PACKAGE_MANAGER:         "pnpm/9.13.2"

Biome Configuration:
  Status:                       Loaded successfully
  Formatter disabled:           false
  Linter disabled:              false
  Organize imports disabled:    false
  VCS disabled:                 true

Workspace:
  Open Documents:               0

What happened?

1. Clone repository https://github.com/iamsauravsharma/biome-organize-import-repro
2. Run command pnpm check
   biomejs presented warning text when there should be no warning

Skipped 1 suggested fixes.
If you wish to apply the suggested (unsafe) fixes, use the command biome check --fix --unsafe

Checked 4 files in 3ms. No fixes applied.

Since organizeImport is not unsafe fix suggestion is also incorrect

Expected result

Biomejs should not print skipped 1 suggested fixes since it is actually ignored

Checked 4 files in 3ms. No fixes applied.

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