Marlin,
When I replaced my original Pertronix setup with the Ignitor II setup, I went with the corresponding coil (60 KV if I remember correctly). It called for the removal of the resistor wire to the coil. If you have a coil that is designed for 12 full volts, it will not lose as much voltage at the higher RPMs as the coils designed for the ballast wire/resistor. It will lose time for coil saturation as the revs go up, but the higher voltage going in will allow for less of a drop off in working voltage.
One of our friends was at Martin was having trouble with his motor breaking up and not wanting to rev beyond 4500 rpm. Two sage individuals from Canada told him to close the spark gap on the plugs. His old coil was not producing enough voltage at the higher revs + the higher compression of the motor to jump a gap. Close the gap, less voltage to arc the plug= best performance out of the car ever. 13.07 out of a 1964 Merc 427 Maurader!!!