I really have no idea what is causing this one. I am using Pokémon Essentials V.7 and this problem recently occurred. I have edited various menu scripts but the only map script I've worked with is the camera, which I have reverted back to test and still had this problem.
Anyone know what's going on!?!?
EDIT: When maps are connected, walking a random distance in any direction will cause the connected map to suddenly overlap the current, but the Player will still be walking as if on the covered map. Walking back to a spot where this did not occur makes it go away, until you walk back.