You are seriously going to punch me through the Internets, but I still think you should disassemble the entire front of the car and inspect all things timing related.
All your codes seem to me to be point back to timing and since you just did the chain and such. Maybe the CPS wire is frayed somewhere along the path and arcs or grounds out somewhere? I dunno, but I still just think it has to be this.
So back in my M20 days I did the timing belt, tensioner, etc as part of some regular maintenance. As I should have, I turned the motor over by hand a few times to make sure I had the timing right which I swore I did.
Sure enough, I turned it over and it ran- like butt. It was a merry christmas and I got lucky and didn't blow the head. I took the whole thing apart and re-checked. The second time, it was perfect. So this is why I think it is totally possible that this is the issue for you...