That tells me that they
still might not be clean. Done properly, it only takes one time.
All the more reason to suspect the valves. They can run "perfectly", right up until the point where the valves get burnt.
Please don't drill out any jets. Starting with the fact that you have NO idea what the starting diameter of the jets is now (you have a number, but not a size), you also don't have any idea how much bigger to make them. Then, if you do ever get the bike running and sell it, the new owner is going to say, "wow, how did he ever get it to run with these little (numbered) jets?" New jets are only a couple bucks a piece.
The float height should be set to the STOCK height, as it affects ALL circuits in the carbs. Give them all a proper baseline from which to work.
Believe it or not, the main jets can be a problem at 2000 rpm.

Yep. The circuit that is being used is more dependant on throttle position than engine speed. Open the throttle at 2000, the mains are called to duty.
Also note that there is some overlap on these settings. For example, the pilot will still be adding a bit of fuel through most of the range, bit it is such a small amount compared to what the main will be adding when at full throttle. The main is actually providing the fuel that is regulated by the needle circuit, differences in its metering ability only show up when the needle is fully open.
Yep, it's another one of those times.
On the CV-
type carbs (the Mikuni BS-series carbs in our GS bikes), that screw is the "idle mixture adjustment screw". The mixture is pre-set by the pilot air jet and the pilot fuel jet, then run through some passages inside the carb to the top of the throat. There are three small holes, one is always open, right at the throttle plate, a second that is opened just as soon as the throttle plate moves, and a third one that is a bit downstream. The one that is always open can not supply as much mixture as the engine needs at idle. The two at the throttle plate can not supply what the engine needs at low throttle openings. That is why the third hole is adjustable with the "mixture screw". Turning the screw OUT will add mixture, richening up what gets to the cylinder. A good starting point to start your tuning is with the screws three turns out, then slowly tweak them from there, listening for highest engine idle speed (best running).
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