We are a team of developer who just switched from SVN to Git and we all have the same problem.
From times to times, when we do a "Git Pull" operation, we receive this error message. Thing is, files get pulled anyway and end up being flagged as local modifications which is not the case. We then need to manually revert files that are not modified by the user, then do a pull again. Can be very troublesome when we had a large number of modified files before the operation.
We had the same problem using the official VS2013 Microsoft Git plugin, so we removed it and switched to TortoiseGit but it does the same thing.
Also note that I tried adding the Git folders in exclusion rules in the antivirus software and removing Icon Overlay as mentionned on a StackOverflow post, but it did not help.
What is the file extension of all problematic files?
Are they all VS2013 relative files?
What is the settings value of AutoCrlf and SafeCrlf?
All of you people use the same settings value?
All of the OS Windows? or some people use Windows and some people use Linux?
Does the hard disk drive have enough space?
The link of StackOverflow post?
The same issue posted on msysGit group as an note:
Could you provide the complete error message?