You've created a big problem for yourself there, because access between 'rooms' can be in any of the surfaces and they are not easily mapped. If 3D is out of the question for you, I'd suggest a view that includes the walls of each room (is it called orthographic? Excuse my lack of cartographic terminology). Like this:
April/May - A One Story Building Entry - Mages House
But maybe with the walls more pronounced and using the port side as the 'floor'.