Prepare to kick yourself in the ass. That second pic is supposed to plug into the Theft Deterrent Module!
Awesome sketch I know. It should be to the left of the glove box and right of console. Black box that I think has the same color female connector on it. I am going to say that vats is NOT tuned out of the pcm, too.
The first pic is the theft deterrent relay. This controls the starter. I am not crazy about the whole wiring it has but if it works, it works. Flipping the switch should prevent the starter from engaging. If you like it, leave it. Just tuck it into the dash and find a good clean ground to attach it to.
So I think your two options are find your module and plug it in or have someone disable vats in the pcm. You could try getting a used module but then you need the proper resistance for that module to work. I may have one, I'm not sure if my key matches it though. I know I had vats tuned out of the pcm though. Follow me?