I've noticed in IDEA 9.0.1 that the list of locally changed files often gets out of sync with the file system. On the command-line, svn status shows a number of modified and added files. In IDEA the changed file list will sometimes show some, but not all of the modified files. If I refresh the list, often it will show 0 changed files after refreshing. The files themselves are still modified or added - IDEA is not touching the files - but the list is out of sync. We are using svn 1.6 as our server (and that was a recent change, though I don't know if that would affect things).
This is a significant problem because we use TeamCity to remote run commits. If the list is out of sync, it cannot be used for remote runs.