Right after I got the first pollen badge, I went to the game menu, hit "Transfer Game" and uploaded my game. After exiting the game menu, the entire clickable GUI was invisible - I could still see the game, but no menus, no buttons. It was like camera mode with no exit or "take picture" buttons. I found that the GUI buttons were still listening for button clicks - I could click on the universe bubble button to switch to Primary or Meso or Beyond, but I could not see it (I knew where it should be and I clicked on where I thought it was). I could expand and minimize the toolbar, but I could not see it (the screen altered slightly, so I knew something was happening). I had to quit the game and reload it.
Then after I got the second badge, the same thing happened; I uploaded my game and then the GUI was gone. As before, I could still click on GUI elements, but I could not see what I was clicking on.