Plugin Commander Help - Mass Activate/Deactivate failing

Hi:

Would anyone happen to know why when I use either the "Mass Activate" or "Mass Deactivate" functions of plugin commander, it never seems to complete and eventually just goes to a blank page. I have about 2000 blogs on WPMU 2.9.2 at the moment. I figure it must be something with a PHP script execution timeout or a mysql parameter that is cutting things short because its processing so many blogs. It used to work fine when I had fewer blogs. Any ideas?

Thanks!