Fresh install of FC6. Got everything working to my liking except for one thing: some applications are coming up with transparent windows when they shouldn't.
For example, when I launch tsclient to connect to a remote desktop, the entire remote desktop window is transparent, and almost unusable no matter how much I adjust the transparency level up or down. Same thing happens when I try to use the java based Oracle SQL Developer.
I've searched but I can't find any settings to control this behavior other than turning desktop effects on and off.