All three maps for the AP have that issue for me. Not only are they push up and to the left, all the walls are flattened into a single line of walls and terrain on the top and left edge of the map.
Printable View
I just picked up the PFRPG Gamemastery Guide and I notice that the NPCs all seem to be missing their class and level from the Type box.
For example, the Acolyte has simply LN Medium humanoid, but should have Human cleric 1, LN Medium humanoid.
hell's rebels, missing 1 dagger and bracer's of armor: Meeting Rexus, Parcel A New Friend In Need (CR 2) (fixed by madman, in hells bright shadow book 1)