I have an identical problem.
(I am running lucid netbook edition with 2.6.32.22)

I assumed that the bug occurred due to my changing the buttons on my
program title bar(changed from mac style to windows) or by introducing
workspaces(both done through gconf-editor). However, i do not know this
for sure.

The top panel disappears whenever there is a change in the windowing
system(opening/closing windows causes it to disappear) but all the
underlying buttons and applets are still there and can be clicked. Also
some small alert windows do not appear (including the window-switching
applet, and the shut down applet).

Similar to the change above(switching themes) one workaround that makes
them appear back on my laptop is pressing the power button, which brings
up the shut down window(but which like the top panel is invisible). On
pressing <Escape> key with the shut down window focused, the top panel
reappears. This works till I open/close another window and then the
panel disappears again.

-- 
Netbook Remix top panel disappears randomly
https://bugs.launchpad.net/bugs/569657
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