In Blender, select the MH mesh. Be sure to be in object mode (not pose mode).
Hit TAB and enter edit mode.
Select one of the vertices of the cloth you want to remove.
Type CTRL + L to select all linked vertices.
Now you can separate the cloth from the mesh, or delete it.
To separate: hit P, choose "selected". When you return back to object mode (TAB again), you should have two separate objects. Now you can select the cloth and move it to another Layer.
To delete: hit x, choose "vertices".
Repeat steps for other clothes.
I don't know if modifying the mesh affect shapekeys, expressions, poses and so on, try and see..
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Sorry iphonedeano, I could read your self-reply only now