One annoying thing with cygwin's git is that it (cygwin) handles file permissions differently from how windows applications handles them, meaning you easily get

One annoying thing with cygwin's git is that it (cygwin) handles file permissions differently from how windows applications handles them, meaning you easily get permission changes inadvertantly included in your changesets unless you explicitly undo those changes from cygwin before staging and committing. It definitely makes using git fell less seamless than it can be.