Description of problem: Should it really do that? Version-Release number of selected component (if applicable): beryl-core-0.2.0-1.fc7
It'll only do that the first time you run it and subsequent launches if you leave the window manager in beryl-manager set to beryl. Perhaps a more sane default would be to stick with the current windowing manager until expressly setting beryl as the window manager. Not sure how involved that is though, or if its really worth the effort. Can't wait for the beryl/compiz re-merger to happen... :)
compiz-fusion packages are Coming Soon, beryl is pretty much EOL now, closing wontfix.