Same problem here....I like the default system panel at bottom with something like a system tray at bottom right, and menu,file mgr and browser on left and rest reserved as task bar...I wanted a quick launch type bar at top....when I add a top panel and add a few items to it, the next reboot yields ONLY that panel and the system default on the bottom has gone away....this has happened to me on multiple machines that I have put together, and I have to keep recalling how to workaround this obvious bug....
I just
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rm ~/.config/lxpanel/Lubuntu/panels/top
and on the next reboot, the default comes back....basically give up on the top panel idea....
have not yet explored a better workaround,
probably I could save the dafult as ~/.config/lxpanel/Lubuntu/panels/bottom and then create the new one?