Found the real issue! Wait until you see this! Turned out to be a little bit of excessive cam wear. Apparently the cam is the week link in this build. The metal properties of the Comp Cam limits the maximum mileage to about 150,000 miles with .512 lift, Trick Flow Springs, and 1.6 rockers.
Up until this cam was removed the truck still ran very well. It would idle fine, run strong and smooth with no missing. The one and only sign was rocker noise above 3000 rpms. I knew something was going on and over several months that it took to identify the issue I was careful to look for any metal in the oil. I placed a magnet on the oil pan near the drain plug and another one on the oil filter. When I changed oil I would bend a Q-Tip and swab the inside of the oil pan above the magnet and found no metal there. I would also cut open the oil filters and inspect the inside and found no metal there. I would strain the used oil and only found a very small amount of metal debris in the strainer, no more then what you would expect with a few new components like valve springs, lifters, etc. It looks like the filter was probably catching and pretty much holding everything that was running through the system.