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Okay, so the issue is because Cygport is enabling case sensitivity on the build directory, and that's causing the tests to fail. I think that won't actually cause a change in Git's behaviour, though, so this isn't blocking the release.
It's not clear what the correct solution here is, but I can at least block out the tests and release.
Using the Cygwin time machine, whatever has broken was broken by the change from cygport v0.36.1-1 and v0.36.2-1.
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