Try running it for about 20 seconds and then shut it off. Check each header tube to see which one is warm. If some are cooler than others and they are matched like 1+4 or 2+3 check the coils. Start the car and pull one of the suspect plug wires to see if it is sparking. If it is then it might me a fueling issue. I had a similar issue when I got my ms on my car, it ran just like you were saying. I had a stuck injector + coils firing backwards + bad crank sensor, not real easy to troubleshoot multiple problems.
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