I recently changed my Conky config so that when I 'Show Desktop' Super+D, Conky doesn't also minimize.
So I changed own_window_type normal
to own_window_type override
This worked fine except when I boot Ubuntu it starts up with Conky on top of all windows. I have to kill and restart Conky for it to display properly.
own_window_type normal
line but also, under Compiz, General Options, unselecting "Hide Skip Taskbar Windows".