I can confirm this too; just happens with Compiz, not with Metacity.
Just click anywhere in the desktop and the bottom panel comes from the
void.

Also, it's not just the bottom panel that's not visible; I have "session
restore" set, and when I login, a Nautilus window I left opened at
previous logout is usually not visible. Just click anywhere in the
desktop and both the nautilus window (and bottom panel) are finally
shown.

To set/unset "session restore" go to System | Preferences | Sessions,
tab Session options, check box "Automatically remember running apps when
closing session" (I'm translating from Spanish).

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bottom panel not visible when desktop starts
https://bugs.launchpad.net/bugs/147070
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