At muneeb im not sure if you have already find the problem,but if not I would suggest you doing a parameter reset since you said the vehicle came to the shop running.
Did you get this car started the fact that you erased all keys means the new key maybe faulty read the key id if you have a key reader or get a new key that is reputable to work with Ford
Edie 65 had to step away from this All consuming Forum out of frustration of trying to get Autel to improve things and retired from posting here any longer probably because his wife couldn't get him started anymore:-)