Snacky,
Engine vibes are 'normally' caused by
carb jetting or air leak of intake manifold or air box to carb air leak. Have you 'lapped' the mating surfaces of the manifold?
There's also a spacing collar that's a part of the carb to intake manifold, 'clamp'. The clamp, (screw that is tightening the carb to manifold), has a small collar between the halves of the clamp. Take the 'little collar' out and retighten the manifold clamp.
Now, of course, this is just the simple things. How about running 2 oz per gallon of SeaFoam or Techron. There 'may' be a lot of carbon that's building up in the combustion chambers that it's throwing one of the pistons off balance, causing the vibration. Letting us know your carb settings would 'maybe' help. If you have the carb jetted too rich then it's possible the carbon is getting heavier and heavier.
Didn't you say on the other thread that you had no vibration, 'then' it started litle by little? Maybe I read it wrong. It helps us if we know all the info of the mods to the engine/carb,(settings). Year of bike would help.
I know you're probably tired of writing this out. Just wish I'd seen all of the info. I 'try' to help in situations like this, but fully understand your frustration by repetitive writing.
Odo