Mustang alarm
Ford sold a Ford branded alarm through the parts department. These sometimes were a dealer installed option on new cars. Mine would randomly stop responding to the remote and I would have the same symptoms as you describe. I had it removed and the original equipment factory system still worked. Be warned, if you have the Ford "accessory" alarm, your key fobs (remotes) are different and the method to program them is different from what you will read online. You can tell if you have the system by looking at your key fob. The standard Mustang key fob is a 4 button (lock, unlock, panic, and trunk). The accessory alarm uses a 3 button remote and clicking unlock twice would pop the trunk. I really wish I had a picture of the remote because there are 3 button Ford key fobs for cars without a trunk release although I don't think you should have one on a Mustang. Long story short, if you have the accessory alarm, you can solve your problem by having it removed but you will need new 4 button key fobs to remotely lock/unlock your doors
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