!) to this, there is quite a lot (not surprisingly) of info and discussion scattered around the Internet about Jerry's gear and tone. For example, you can pretty readily tracks down discussions on other forums about his Mu-Tron III settings, and while I think some uncertainty must remain on the details, what I learned there did suggest that the "Nutron" settings on the preset in the Preset XChange might not be the most accurate. You would have to do your own digging and messing around to see what you think.
Equally, Jerry's gear changed a lot over the years, so it will depend a bit on what your favorite Jerry tone is, or whether you are kinda mixing and matching to create Frankenstein Jerry vibe.
I like the tones from his various periods with single coil, P-90, and humbucking pickups (leaving aside all the funky on-board electronics installed at various times), but I only have a humbucking guitar, so compromise is inevitably required!
I still tend to think that the Fender '65 Twin Reverb model is a good start. One might try swapping out the power-amp with something more like a Class A or maybe even the plain Solid State model, and one might try different cabs ... Something open-backed with JBLs might be best, but there's no such model at present, so you'll have to experiment. Jerry's basic tone always seems to have been pretty clean, then colored by pedals as required. In the '70s, besides the (in)famous Mu-Tron III (and the Mu-Tron Octave Divider), he used a number of MXR pedals at various times, including the Distortion+, the Analog Delay, the Phase 100 ... the latter is in AT as the Phazer 10. In the '80s he famously used the same Boss HM-2 pedal that found favor with Swedish death metalers (though, ah, not to generate the same tones
) which is in AT as the Metal Distortion 2. The '80s generally saw a move to Boss effects (e.g. Boss Octave Divider), though always with some weird custom stuff in the background. Still, for pedals, I think the envelope filter, a distortion/overdrive box, and perhaps a delay of some sort will get into the zone. In the early '70s, about the only effects were a wah, either Vox or Colorsound, I think.
But, for example, Steve Kimock -- who is pretty knowledgeable on Jerry's tone -- is on record as saying he's tried the exact Jerry rig and gets an awful sound, whereas he gets closer to the tone by doing all the gear "backwards" (e.g. "one piece lightweight alder body, weak single coils, really heavy strings, low powered stereo rig, altecs, celestions, stuff like that"). So go figure!