Not Ranked
I had this same problem and replaced the entire ignition system. Still had the misfire. Then a friend of mine said it could be the alternator. I removed the fan belt and started it up. The misfire was gone. Bought a new alternator and the misfire returned. Ended up being the voltage regulator. Appearently the MSD boxes are very sensitive to voltage spikes, and that was causing my problems.
Good luck.
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