I have an 04 Mt with 126k on the car. Just put an engine in on 12/2/17 and I am having a few problems. Most of them I have gotten fixed but I have 2 left. The first is p0661 which I have ordered the solenoid after switching it to another and it solved it. The second and the one I am worried about and stumped is a misfire on rotor 1. I have brand new coils, wires and plugs installed on 12/4/17 and also new intake gaskets. Have checked for intake leaks and haven't found any more after installing the intake gaskets. Cat has been gutted don't know when it was like this when I got the car. Bought the car at an auction with a motor with bad Apex seals. Filled the car up with 93 gas and premix. Car idles perfect and runs great loads of fun unless I stomp it and then at 6500rpm it hiccups and cel starts flashing. Pull code and have rotor 1 misfire. Been dealing with this since Monday. Can't figure it out. This is the first rotary engine I have messed with. Until this I have only dealt with 4-8 cylinder engines. I have tried the brake stomp to reset everything and nothing changes. If Im easy on it I can redline with no problem. No cell flash or anything. Only when I stomp it. I have swapped the coils and plugs to see if it would move to rotor 2 but it hasn't. It's killing me not being able to figure this out. And no I have not had a compression test done. This is a used motor with about 20k miles and I have a video of it running in the car it was pulled from with no problems so I'm thinking it is not the motor. Please any suggestions would help and I would appreciate it. Sorry about the long post

 

How do you know the misfire is on rotor 1? Do you have any codes?