I'm loving an AY7 in the PI of my heartbreaker, smooths out the tone and has no strange artifacts going on allowing the natural expression of the power tubes to come through. (I run EL34's in my heartbreaker). i'll be trying an AT7 when I get around to ordering a bunch of new tubes. Can't remember what I have in the PI of my Nomad, but Ch2 is very very similar to the hi gain setting of the heartbreaker lust channel, so i can only believe I'd prefer an Ay over an AX.
There's a fellow with some youtube clips of his Les Pauls through the Nomad Clean Channel with a tubescreamer boost, and the tone is phenomenal. I've always held that the Nomad's clean channel is one of, if not the best in the business, for a post-V1 tonestack approach anyway, so no surprise you're getting Andy Timmon's quality.
If the Nomad was configured with only Ch1 and Ch2, people would like it. Ch3 sure buggered its reputation, but ya know, I've found if I back my volume off on my guitar, the Ch3 fizz disappears ala marshall.
All said, though, the fixed treble boost in the NFB really has to go, as you've found. I've been thinking that mesa did this to revoice the 6L6's that come standard in almost all their amps to have more of a EL34 quality. By comparison, the Heartbreaker has a standard NFB, and the low-mids are so powerful with 6L6's that they melt your face and make your eyeballs shake out of their sockets, which I don't like....which is one reason why EL34's are way better in that amp....so you see why Mesa may have done this to the NFB.
My current train of thought is that Tungsol EL34B's may be the perfect match for the stock nomad, so I'll be purchasing a set soon. They are EL34's with the bottom of a 6L6 and with the Nomad's weird NFB, they should be a good match.