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[dalesd <dalesd@xxxxxxxxx>]

I have this bug too.  In "desk 1" I have a top panel and bottom panel.  In Desk 2 thru 4 I have an invisible top panel.  If I add another panel, it comes in on the right.  If I change its properties to top, it comes in as if below an invisible top panel.
I have been experimenting with new settings in CompizConfig Settings Manager, and this started up right after that.  
Which desktop effects option are you asking about?

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Top panel disappears when changing workspaces
https://bugs.launchpad.net/bugs/371392
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