You cannot disable the system. The PCM needs to see either a Go or a NO-Go command from the PATS module. No command is the same as a No-Go.
This system is not hard to repair for a properly trained technician. With the factory scan tool he/she can pull codes and then confirm the operation of the transciever, the key transponder, the PATS module and the PCM. Failure of the wires from the transciever to it's harness connector is common.