I don't think it's my amp. I have an amp shop that specializes in souping up Mesa amps.
Pickups that I really like with my setup are:
PRS McCarty with Duncan Alnico II humbuckers - extremely warm and buttery with lots of sustain
PRS CE-24 with Air Norton and Tone Zone - Very edgy and punchy sounding, like a kick in the chest. Lots of sustain and warmth there too.
The PAF Pro is nice sounding, but a little bit looser sounding than the Air Norton.
The Fred is ok, but too bright for my tastes.
Fulltone Clyde Deluxe Wah
BYOC OD-2 pedal
Planet Waves tuner pedal
into the front of the amp
Mesa DC-5, completely reconfigured to my circuit which is basically like an SLO on the lead channel and Fender Super Reverb cleans.
TC Electronic Flashback Delay in the loop
The pickups in the JS
are too bright for me when I play it through other amps too, like.....
Mesa Express 5:25
Fender Princeton Reverb - hand wired Allesandro
Fender Deluxe Reverb - hand wired Allesandro
and just about any other amp that I get in my shop
I really like the feedback, sustain and harmonics of the PAF Pro, but it is a little loose sounding for my tastes.
The Fred is just way too bright for me. I know lots of guys really like them, but it doesn't suit my tone.
I didn't buy the guitar because it has the JS
name on it, I bought it because it's super light and fun to play & it won't go out of tune no matter what I do with the tremolo.