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DON'T USE THE WINDOW CONTROLLER.
Now that I have your attention, at least find out if it will work right. Keep in mind the 05+ mustangs roll the window down that little bit each time you open your door. The modules that I got (not the same as yours) take control of the windows when the ignition is not on. They are a realy pack, and when the ignition is on the regular window switchs control the windows. When the ignition is off the module gives the alarm control of the window, taking away the ability for the car to give the window that little kick down when you open it.
I didn't do any major research on how it all works together, and your modules may be different. So just check into it.
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