I understand. The problem is that every amp is different. My recto is different from every other one I've ever tried. My Uberschall did not sound like my buddies and sounds nothing like the Uberschall in the Axe. There are new revisions of each amp with tiny details changed, all speakers, even exactly the same model from the same year, are different to some extent, all mics are different, all tubes are different... etc... There is no perfect replication of any amp. There is only a perfect replication of one very specific amp at one very specific time. Adding a touch of low end, mid or top will not make it sound any more or less like the amp in question. In fact, it might just sound closer another production of the same amp. My point is, dial with your ears... you can make up for anything you hear that might be "different" or imperfect. The is no perfect and there is no "wrong" at this point of the game... there is only slightly different.
We are getting to a point where we are simply chasing our tails, in my estimation. 1703 is fantastic. I think the final frontier will be a dynamic cab IR that will display the same nonlinearities of real cabs in real rooms. I'm sure Cliff will figure that one out much like he figured out the dynamics of power amps. Then we are in for a real treat. The game will be changed forever.
You are not trying to capture the amp in this case, you are capturing the cab, the amp coloration makes that capture less accurate.