Bypass Windows Directory

Hello! Here is my issue and this would be the only other thing I could think of.
We are running a 2008 R2 server with some WIn 7 64-bit pcs. Now, win 7 has a tendancy to have “trust issues”. We have found though, with my comodo systems this happens almost monthly and is a pain! Is there a way to set comodo to bypass the windows directory? or does anyone have a better solution? Thanks!