During my most recent game, midway into the game the JK event happened and they got 10 of my colonies. One of those colonies was building the Eyes of the Universe wonder. It wasn't a big deal, I was going to start building it on a different colony since I knew the one that I started that the JK nabbed had it at the end of a pretty long build list.
The only problem was that it didn't appear on the build list for any of my other colonies. I ended up having to retake that planet to get the wonder back even tho it hadn't been built yet.