Need some advice - post header install auto shift issues
So as some of you may have read earlier I just did a header install. Hooker SuperComps with the Hooker 3" y-pipe. That deletes the cat and connects to my magnaflow catback.
I ordered o2 extensions for the sensors and that is all plugged in. The emissiosn stuff is not functional. No EGR, No AIR (but the pump is still there). The car is untuned for now. I ordered a cable to scan but they sent me the wrong one, so now I have to wait to get my OBD1 cable.

Here is where the fun begins. The computer is throwing a code. That doesn't surprise me, it's wondering where the EGR is at and it's MIA. I'm assuming this is effecting the car greatly.
Here is a breakdown on what the car is doing (I actually test drove it over the weekend a lot to see how it drives, what it does, etc).
- The fans stay on all the time - I found out here that it is a security feature when the SES light is on. A tune would fix this problem, thankfully (hopefully
)- When the car is idling or slowing down (I normally see this in 3rd, but it used to happen at a regular idle) it'll bounce from 1100-1500 like it doesn't know where to go. This is really weird.

- I throw it in gear and it pisses off my transmission
the idle is too high so it slams going into Drive or Reverse especially if I had the brakes engaged. I've been doing it in my yard/stone driveway so it doesn't jerk the car as much. Why is it idling high? I'm assuming something SES-light related. 
- When driving, the shift points are completely off from what it was before. Is the 4l60E electronically controlled? Like the fans being on, is this some kind of safety mode (part of closed loop) that only allows the shifts to be at 3000rpms? Basically, the car shifts 1-3 at about 3k. This is when I'm on it. I can hammer down pulling out and it'll still shift at 3k. What's up with that? And I don't think it goes into OD. Sometimes if I accelerate in 3rd it'll go into OD, but not on it's own. It also doesn't go from like 2nd to 1st.
I'm hoping a tune will solve all of my problems. I just need tome input and advice because I'm pretty new to cars but I'm picking up on things rather easily (thanks to lurking around here and the Search feature!). Thanks guys!
That being said, it only threw two codes.
Code 22: TPS Circuit (signal voltage low) - (See Code 21)
Code 66: Air conditioning refridgerant pressure circuit (low pressure) - Check the sensor electrical terminal connections and possible short to ground or open circuit in the sensor wiring. Replace the Air conditioning refridgerant pressure sensor*
I used FreeScan. Code 21 is "TPS Circuit (signal voltage high) - Check for sticking or misadjusted TPS. Check all wiring and connections at the TPS and at the ECM/PCM. Adjust or replace TPS*"
I don't understand how to actually adjust the TPS. It doesn't look like you can adjust it...Maybe I'm wrong? I had the car idling for like 10-15min. When I started getting asphixiated from the header pipe paint burning smell, I took it for a drive. Why aren't any emissions (AIR and EGR) codes being thrown?
It is definitely in closed loop mode. Any help would be great. Thank you.
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Freescan and Datamaster both say the same thing.
Since the old throttle body was replaced, the cables and tps shouldn't have moved. I found this site to adjust the TPS. Is it worth trying?
http://www.golenengineservice.com/html/tps.html
Would this cause the car to go into limp mode?
edit: if you want to see screenshots I can take some. It'll just be a PITA since I'm on dialup right now.
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Codes in FreeScan

Engine Data in FreeScan - Most of these fields constantly move as it idled. As you can see, it was idling high. Desired idle 662? Doesnt that seem a bit too low?

Sensor Diagnostics in FreeScan - Shows the TPS level.

Datamaster monitoring - help?










