After I finish working with a removable flash drive I click eject icon in nautilus. If it is appropriate I get a dialog asking if I would like to empty the trash before it un-mounts. I click yes and everything works fine except my Docky launcher disappears. All I need to do is go up to the menu and re-start it, but that can't be right, and I'm not sure how to make it quit. If it matters I have the Trash, and Mounter docklets running.
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This is a bug with the Mounter docklet: https://bugs.launchpad.net/docky/+bug/552657

Isaiah
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~/.xsession-errors
for anything related to Docky. You could also run Docky from the terminal and post the stack trace in your bug comment. – Isaiah Oct 30 '10 at 00:15