I've built a couple of D-style amps, purchased (and quickly sold) a clone of #183, still have a Glaswerks Zingaro (nice amp for the money!) and actually played the original after an RF show. Playing the original, I was also using his Tele, though, and I wondered how much of the goodness I was hearing was guitar versus amp.
Anyway, I have one amp that I built and rebuilt a lot trying for fun and for tone. I am nowhere near the expert Scott Lerner is. But my amp sounds killer to me...it ought to after over a year of tweaking. It sounded at least as good to me than the #183 clone I bought in every way except noise. So I need to revisit my wiring, which will make me have to go back and readjust C and R values somewhere, I'm certain.
Point? Even getting a real amp like that to cop the tone of Rugged Road or Politician is not easy. The AFII gets me pretty close in some ways, but me of the pieces I think is missing is the G12-65: if I am going through an FRFR system, even using blends of mostly Jay's FF 2x12 and other things, I can't quit get what I want to hear out of the system. The G12-65 has this smooth bite to the upper mids that to me is a fair fraction of the tone you hear on RF tunes. There is something there on the actual speaker that I don't hear in the IRs I have access to.
But if dedicated amp builders using theoretically identical components can't get the same tone as the original, we probably shouldn't be shocked to find that a modeler using none of the same components doesn't do it exactly right. We might be shocked to find how close it gets given that.