I have noticed that compiz has issues with applications that minimize to the
notification area. The prime example is gaim. I'll close the program with the
X at the top right and then it'll be minimized to the notification area. When I
click the icon again to bring it back, it won't display the buddy list.
This bug is reproducable but not 100% so. Compiz version 0.0.13-0quinn34.
Sorry about the phenomenal bug spam, guys. Adding xorg-team@ to the QA contact so bugs don't get lost in future.
This most likely is fixed in the meantime.
Please reopen if problem persists.