Does this problem go away if you disable Unredirect Fullscreen Windows
in compiz? You can do so by installing the compizconfig-settings-manager
package then going to System->Preferences->CompizConfig Settings
Manager. The option is in the General Options section.
** Changed in: compiz (Ubuntu)
Status: New => Incomplete
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gnome-panel reappears in full screen mode after resolution change with compiz
https://bugs.launchpad.net/bugs/427097
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