***UPDATE to the update***
Got it all back together and fired it up, I don't have time to go drive it but I let it run in the garage until it warmed up and the noise is gone so far. The valve train is dead silent from the top side of the engine and I'm on a step ladder leaning directly over it and listening closely. Its hard to hear shit with the exhaust but I can definitely tell that it is near silent up there compared to how it was. Revving the engine slightly used to be the easiest way to produce the noise and I cant hear it at all anymore when I am doing this.
SO, in conclusion I am not sure if I just got some shit parts, I was too hard on it, or beating on it at the dyno when it was near brand new is what hurt it but it was definitely hurt. Lucky for me it seems *knocks on wood* to have been an easy fix as far as cost, labor, accessibility, and damage are concerned.
For you Kevin, would I suggest the upgrades on a brand new engine? In my opinion, it wasn't terribly expensive, $280 for pushrods, trunnion kit, and the special tool and while it wasn't really hard to do with the engine in the jeep it would be a HELL of a lot easier for you now while your jeep is apart. It also in my opinion addresses a shit design in the stock trunnion and beefs up the seemingly lacking pushrods. I really don't feel like I should have bent these already.
If you do decide to go ahead and do this, please report what kind of play is in the stock trunion / bearings on an unused rocker arm. I am really interested to see if mine were already worn or they are just that big of shit to start with.