86 2.5 Running rough/ stalling issue

[eaglescout526]

2 hours ago, jamcomanche said:

My TPS is set right now at around 4.75v at WOT. My understanding is that should cause a high idle, not a low idle. Do you know if that's correct?

A little high but should be fine. 
 

What I like to do in situations like this if I can get the engine to run and stay running, I’d start unplugging things and seeing what changes. 
 

What’s the history on your MJ? I almost wonder if the ISA has been messed with. I also recall having some similar issue where I could get the engine to run right during the time it had a bad headgasket and unplugging the MAP would usually make it run better. I almost think the ISA could be adjusted too low by the PO and now your basically fixing their “fixes”.