I don't wish to curse myself via the mopar gods, but I think I have found and resolved the issue.
There was a multitude of weird issues.
#1. The car would intermittently get insane spikes of very very very rich conditions. The car would basically load up and then backfire like a crazy motherberkeleyer. If I slammed the gas and opened it up, it'd be fine, and then go back into "LOAD IT UP" mode. It would then misfire, stall, and do this until the car was restarted. It would eventually do it again. It did this starting about 2 miles from home the day I came back from autocross. What I found is that the original crankshaft sensor was loose, and broken. On top of this, the harness had no guide for it and the wire was rubbing and touching things. It seems, as odd as this may be, that it was getting noise being up close to the alternator. I re-routed, reheatshrinked, and tied it down to ensure it is no longer going anywhere. No more loading up now, no more spikes, and that was after driving a good hour and a half.
#2. The map sensor was a noname. The place I originally bought it from had it labeled as OEM. However, I bought a new OEM sensor for the car, and not only do they slightly have some quality differences, but they have clear brand names and part numbers stamped on the OEM vs the one I got. I am thinking I was sold a cheap knockoff and it was dying on me. I replaced the vacuum elbow as well.
#3. The harness was pinched. I noticed that sometimes (but not all the time), if I grabbed the harness or connector while it was still connected and wiggled it, the car would stall, and act as if the map sensor had been briefly disconnected, resulting in the check engine light. I snipped the connections about halfway down the harness, tested with my multimeter and was able to reproduce wiggling it and moving it and seeing the resistance jump all over, indicating that indeed, they were pinched and broken somewhere. I added extra wire to extend it to alleviate any stress on the harness. More heat shrink, a new loom, and it is happy again.
I drove for a good hour and a half after all this. It's idling perfect, running fantastic, throttle response is out of this world good amounts of snappy, and it has way more power than prior to the rebuild. So fingers crossed.... i think, for now... I'm done fixing the viper and can go concentrate on the Jalpa again.