[JustROLLIN]

Voltage while driving should be right around ~13.8 volts. So, you are not too far off on that mark. Check voltage on the battery after it has sat for a while. Voltage should be ~12.6. If its lower, then you likely have an ALT problem, poor grounds, or a wiring restriction. (Likely the ALT)

As for the misfire. I would certainly think that low voltage could cause your misfire. My guess is that not all the voltage necessary is going to the coil. Our cars produce very high amounts of voltage for the spark. My guess is that the boost is just blowing out the spark.