I think if you want to mod your amp, first do your homework... learn about the design. Only then you will be able to understand what those gurus are talking about and only then you will be able to make your own conclusions and decision what to change.
For example, if you want to make your OD sound darker, there is a lot of things you can do to achieve that. The easiest way is to follow tweaked layout from Jack but what happens if your clean channel now sounds to dark ? .... see, only if you know what those elements are doing, you will be able to make the right decision.
...or go to an amp tech who knows these amps and he will do it for you but expect to pay some $$$ for that. ...and not any amp tech will do, you have to know these D style amps to be able to tweak them.