Auto Mate AM2 and Programming

I just bought a vehicle with an AM2. It was disconnected and I have reconnected and am trying to make it work. It can be armed but not disarmed with the remote. Also, when it is armed it does not lock the doors. However, when it is disarmed (using the valet switch) it unlocks the doors. It does not seem to respond to programming as described in the manual from this website. Its 12 pin connector is not wired the same as the manual which makes me wonder if the programming is the same. Are there different versions of the AM2? Do I need a different set of programming instructions? The only other number on the control unit is A500356126. The wiring connections are as follows: RED / Wh -Channel 2 output Red     +12V Power Input Brown   -Horn Output Yellow +Ignition Input Black   -Chassis Ground Violet   No Function Blue    -2nd Unlock Output Green    No Function Blk/Wh -Dome Light Output Wh/Blue -CHS Output White   -Parking Light Output Orange -Output When Armed The door switch is connected to the green and blue wires on a separate connector. Any input is greatly appreciated.