I maintain my Drupal files using an svn setup, whereby files are changed and imported into a respository, then exported to the server. SVN adds an .svn folder into each folder in the installation.
The problem is when I am importing files. I have an .svn folder inside the sites/default/flash folder, and all the files in it show up in the flash import interface. It would be nice if we could set some defaults for filetypes to ignore for that directory, so that these files don't show up.