Well, I have good news and bad news. There was another script running periodically to close a popup and when it runs it closes all the popups. Modifying the script to not run solved the immediate problem. However, the periodic close script was directed a particular popup with a very specific ID. However, it is closing any popup that is open, ignoring the ID.
Due to a critical issue, 8.0.12 was actually more of a hot-fix for 8.0.11 than it was a full release, and the content planned for 8.0.12 was moved into 8.0.13. When @PGriffith made the 8.0.12 claim he was correct, but the release cycle was changed after the fact and so the fix for this issue is actually in 8.0.13. Sorry for the miscommunication @josh.middleton, but we don’t have a good way to search for places where we might have suggested a fix was part of a release.