This is related to http://jetbrains.net/tracker/issue/TW-5016 but I'll post
a message here since the bugtracker is down at the moment.
Just hit the same problem (builds failing on one agent but running OK on
other ones) again, following a major move refactoring (and a few personal
builds with moved files). I've uploaded teamcityServerCheckoutBuildFailure.zip
to your ftp server, containing the agent logs and a few patches on that agent
(starting from before the problem started to appear).
I hope that gives you enough information to further investigate the problem.
Let me know if there are other logs (maybe teamcity server logs?) you might
find useful and I'll try to produce them (this occurence is fresh, and we've
been running with all the recommended logging for the past month or so trying
to catch this bug).