This is happening to me as well, namely the Network Manager applet icon. 
Sometimes I can get the 
icon to come back when I unplug my ethernet and plug back in, but not always. 
When I right click
the blank space (where the Network Manager icon should be) and do About it says 
Notification Area instead. When I try to remove it my gnome panel flicks on and 
off, which 
makes the mouse focus on and off, basically making the desktop unusable. Had to 
go to 
safe mode and add the applet back to the panel. I am running a non-default icon 
theme and 
compiz, will test more as a default desktop and post back.

-- 
Certain notification area icons are invisible
https://bugs.launchpad.net/bugs/449910
You received this bug notification because you are a member of Ubuntu
Desktop Bugs, which is a bug assignee.

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