I remember reading that early '05s had "global windows" where holding the unlock button would roll the windows down. There were so many problems with it (windows rolling themselves down) that Ford disabled the feature. I believe you can go to the dealer and they'll turn it off. I think it's a reflash.
I might have to do this as long as the reflash does screw up my tune.
I'm sure it's not the remote either. I pulled it apart and used my spare and still had the same problem.
Now I hear clicking sounds coming from both doors.