[georgianastasov]

Description

Fix upgrade-packages not saving modified files when a later package is mentioned only in a comment.

• Preserve the fileChange flag across package updates in logic, style, and HTML files.
• Extend existing regression tests for Angular, React, and Web Components.

Related Issue

Closes #1857

Type of Change

• Bug fix (non-breaking change that fixes an issue)
• New feature (non-breaking change that adds functionality)
• Breaking change (fix or feature that would cause existing functionality to change)
• Documentation update
• Refactoring / code cleanup
• Build / CI configuration change

Affected Packages

• igniteui-cli (packages/cli)
• @igniteui/cli-core (packages/core)
• @igniteui/angular-templates (packages/igx-templates)
• @igniteui/angular-schematics (packages/ng-schematics)
• @igniteui/mcp-server (packages/igniteui-mcp)

Checklist

• I have tested my changes locally (npm run test)
• I have built the project successfully (npm run build)
• I have run the linter (npm run lint)
• I have added/updated tests as needed
• My changes do not introduce new warnings or errors

Additional Context

• Regression tests: 23/23 passed, with 3 failures reproduced before the fix.
• Manual CLI verification passed for Angular, React, and Web Components.
• Full suite: 71 pre-existing failures, verified independently of this fix.

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[coveralls]

coverage: 94.586% (+0.004%) from 94.582% — ganastasov/upgrade-packages-file-save into master