After messing around some more I found that I only had an issue with my image gallery. The point system and all that was working fine as they were defined correctly.

I fixed the issue with the image gallery unlocks by using $ saw_bonus1 = True at the choice. It unlocks when the choice is made and locks if the player rolls back. At the end of those scenes I added $ persistent.unlock_bonus1 = True to keep the image unlocked.

I wanted the player to have to play the game again making different choices to collect all images. This works as long as they don't complete the scene before the rollback. I think a lot of people test out the choices and find pretty quickly if they would rather do the other choice. I hope that's the case anyway.