Ok, these are the anomalies that I've gotten so far. The pic on the left is the picture taken with the KI, the one on the right is the one as seen in game.
All but the first one may be simple bugs, but I'm positive that the first one, of the painting in the Shroom Baron's office, is a clue.
There are some others, but I can't seem to get them to upload. I'll try later, however.