UPDATE
Success!!!
Turns out the plug boar wire damage was worse than I had thought. The brown/yellow wire was completely broken through and the red/white wire was nicked. After re-splicing those back together and wrapping it up well with tape, the car ran perfect.
I don't have any vacuum leaks and the car is running great!
Replacing the waterpump, thermostat, fixing the oil leak at the oil canister, and doing the mess under the intake has really given me a piece of mind. I can't believe how well it idles now.
Thank you guys for all of your input and help!
All I have next is replacing the tensioner, but I am going to wait a few weeks. Only other mod I want to do is replace the clutch fan set up with the later model electric one.
I would probably suggest that the oil canister o-ring and gasket be replaced when you do the mess under the intake. It will eventually leak anyways, might as well do it while you have more room to work. Mine cracked off like old brittle plastic.