press the helpful button,there appears there is more then one type of remote, I think one has auto start and one does not.
owners manuals in the glove box and in there was the Ford Auto Start Remote booklet. For those of you who need to program a new auto start remote, you turn the ignition to the on position, push and hold the little over-ride button (mine is down on the left side kick plate near the hood release) for about 15 seconds, you will hear a chirp which means the system is ready to be programmed, just hit the lock key on your remote and the system will chirp acknowledging the remote has been programmed, continue to do this will all other remotes you have within I believe it was 20 seconds - then shut off the ignition and test your remotes. Worked perfectly for me.
OR
Free Do It Yourself instructions from your friends at Lessco Electronics
1. Turn ignition from OFF to RUN 8 times within 10 seconds, with the 8th time ending in RUN. Door locks will cycle to confirm programming mode.
2. Within 20 seconds press any button on first keyless remote. Door locks will cycle to confirm programming.
3. Within 20 seconds, press any button on second keyless remote. Door locks will cycle again to confirm programming.
4. Turn ignition to OFF. Locks will again cycle to indicate end of programming mode.
Link below
2005 2006 Ford Freestyle Factory Transmitter Remote Fob Programming
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