I was told I might need to remove the res tank and put the straight hose back on, not a problem.
So it looks like the JLP chip has a stock mode which is good so I dont have to worry about that.
Johnny Lightning Performance Link
I live in Elk Grove, which is like 20 minutes south of Sacramento. I have a pretty good smog place to go to. I called them already and they said to just bring it in and tell me what I need to do if anything.