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Maybe a more accurate title would be "... using MICROSOFT apps and tools"

Non-Microsoft Windows tools like notepad2 and notepad++ handle unix line-endings just fine.

Why do Microsoft's Windows apps refuse to handle them?

The issue isn't the line endings. As the linked article points out, the issue is around file-locking and that Windows cannot correctly handle Linux file metadata (permissions, owner, etc.)

Don't know and that used to drive me crazy. It's I knew it was a windows user because of the carriage return. Also encoding would be a nightmare as well.

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