For me, this solution worked:
1. Press Ctrl+alt+f1
2. Press Ctrl+alt+f7

If that dont work, then:
1. Create another duplicate top panel and bottom panel, and then move the apps 
that work, and recreate the apps that dont, then delete the old panels.

If those two dont work, then I am pretty sure you guessed what to do
(Option 1: reinstall, Option 2: switch to kde and then delete all your
old gnome settings in your home folder.)

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Icons from gnome panel are missing at random on startup
https://bugs.launchpad.net/bugs/515139
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