Hey Man,
I just bought my bike last March. If you're ever near the Columbia area PM me.
Anyway, here's another thing to check:
When I first got my bike I did a bunch of stuff(including carb rebuild) and then rode it for a couple of weeks sorting out issues. The bike only had 18k on it when I bought it, but it spent time outside "rotting" before I scored it and was a little rough in some ways as a result....
After 2 weeks of riding it alot after most the work was done it was starting to act funny after it was warmed up...it started with it skipping @ high RPM and then eventually became more severe to close to what you're describing.
I checked both the coils and plug wires. Mine is a 91'. So all this ignition stuff is starting to get up there in age(20 years plus).
I found two things:
1. The plug wires were in horrendous shape, specifically where the plug boots on the engine side thread into them. To the point where the insulating material was brittle and falling out in small clumps. Being cheap, I tried to clip the plug wires back(they are integrated with the coils) to get to "good" material....to no avail. It turns out after a little investigating that I found out the insulating material in these types of wire actually gain resistance as they age...which leads me to point 2.
2. I checked the coils(cold at first, big mistake) and they tested fine resistance wise(I can't remember the ohms off hand, do a search here). But after clipping the wires back it still didn't stop the bike from running on two cylinders(or cutting out) after warming up...so I warmed it back up and quickly put my meter/ohms tester on the bike right after shutting her off...one of the coils was WAY out of spec.
So here's the deal, I don't know if the wires being so old, with such high resistance caused the coil to temporarily overheat...or if the coil was bad...or a combination of both....but I replaced both coils with nology coils and bought the cheapest set of accel solid core ignition wires I could find(on amazon) and clipped them to size.
Problem solved.
It might be something for you to take a look at if the carbs were rebuilt and you have fuel flowing well to the carbs.