I have the amp on the bench and it seems that I brought R's 17 & 18 back to 100k. already.
Ok.
By accident I came across something interesting. I wired both a 10k and 22k to the supply wire. I clipped a alligator to ground so I could flip back and forth to see the difference between the two values. The 22k was more alive than that 10k . Then by accident the clip fell off and with no connection the amp was more lively and more volume. Until I hear from you I may try a higher value just to experiment.
That's interesting. The 22K bass control tail R, R13, gives more mids, but you liked it.
Any resistor seems to rob output. Yes, the there were a bit more mids and the enhancer and presence seem to work better.
Yes, R13 is a path to ground for the mids. The larger you make it, the more mids you keep. All TS's have insertion losses, if you disconnect R13, you remove any loss from the bass/mid side of the James TS. But I don't think the bass control will work then or very little.
Just to recap , should I still go back and revert to all stock values?
Yes, I would start all over.
Some of the changes you made effect the gain structure and some effect the tone structure of that amp and that could be/are messing with the effect of the controls.
That's a more complicated amp than your basic BF Fender AB763 or tweed. Traynor knew what he was doing. He voiced/balanced that amp and with all the changes you made, you've thrown that (way?) off.
I would restore it back to stock and if needed tweak the mids a little to your liking. It will be easier to go from stock.