Necro post, although if you are having that same problem, maybe it is justified, idk, but what exactly do you mean? They should work just extracting from the mpq.
What you might need to do is
A) Create a custom campaign using the Campaign editor, and add the maps to it
and
B) Change the "Next Level Prep" and "Next Level Run" triggers in the "Level data" folder to point to your other extracted maps.