I have a friend in CA that had the same problem. Replaced the coil pack - still missing. Replaced plugs/wires - still missing. He's got it at an automotive electrical specialist, because we think he has some sort if intermittent open/short in the ignition circuit or the PCM is fried.
(Reminds me, I told him I'd send a pic of the circuit. Was supposed to send it to him last week. Oops.

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John, we can scan it again, no sweat. Maybe in 2 weekends at Maple Grove or Arnolds unless you want to do it sooner. I'd bet money it just has to do with the ignition system confusing the PCM's ignition circuits. Unless you have driveability problems it isn't really a concern; just an annoyance (i.e. is it the same CEL or is it something else kind of annoyance). Jacobs should be willing to work with you to figure it out.