if your programming a KEY and not a transmitter,you might have to use the NGS(Ford Test tool).I was ford tech a while back and the was the way we USED to do it.There were certain years that if you had 1 good key,you put in the ignition and turn to run then off,put in 2nd key and do the same.BUT CONFIRM this first,if not,sometimes it deprogramms the other key.