Yes, Charles appeared to be a man when we saw him in the dollhouse, but don't be fooled. He was, after all, in disguise. If it is true that Charles is dead (as Mr. DiLaurentis would have us believe), someone could be assuming his identity as Über A to carry on that legacy. And that someone could be female despite the physical attributes that seem to suggest otherwise. Case in point: The show also used male stand-ins to portray Mona as A.