Update - I decided to replace all the components that could possibly be causing the misfires, spider injector assy, fuel filter, spark plugs, and O2 sensors. Also cleaned the MAF with spray cleaner. Truck is running pretty good. No more DTC's or misfiring, but startup and idle is rough. I'm still working with Blackbear to adjust the tune since I replaced these components. I have to say the Autocal tool is a pretty cool, I just wish I knew how to maximize its use. I'm pretty good at the wrenching part, but my lack of tuning skills is severly limiting progress on the project now the the engine is back in the truck.
I found out that the camshaft offset retard is a low resolution PID, and not part of the 24x parameters; so no fine tuning of distributor orientation once you upgrade to 24x ignition.
So far, I'm liking all the engine and drivetrain upgrades. Its been quite a learning experience, and still is continuing. I will post more pics shortly and will try to post up vids as well. The truck does sound pretty good, not too quiet and not too obnoxious. For the exhaust, I already had Thorley Tri-Ys, and went with true dual 2.5" thru high flow cats, and a single magnaflow muffler with internal xpipe. I'm liking it. cheers and have a great weekend.