According to a few friends over on the PS guide site, Zoink is aware of the issue and looking into it.
A few people have noted you can potentially get the trophy to pop if you quickly exit out of the game and redo the last puzzle - not guaranteed but worth a shot. Posting here leads me to believe you're past the point of no return so you'll, unfortunately, need to replay the game for another chance
** I'm unsure if the devs can make the trophy pop retroactively (really wish we had a stage select feature)
