Why would the Docky launcher stop and disappear when I empty the trash when unmounting a removable drive?

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.