Sounds like you've gone around a few times chasing this problem down. When I've experienced this, I start with what I think is the most likely problem, go through that system competely to eliminate it as the issue, and then move on to the next system having confidence my first guess wasn't the problem.
I would start with thoroughly going through the carbs. There's no telling what parts may be in these old carbs, having been worked on by who knows how many people. I once had a customer bring me his 350 . Running terrible, barely rideable. He thought it a carburetor problem, so he cleaned the carbs in an ultrasonic cleaner (they looked imaculate on the outside), and put all new parts in both from aftermarket rebuild kits. according to him, it ran even worse after all that. I asked him if he kept all the old parts. He did, and gave them to me.
All I did was to completely disassemble and clean everything manually, and reassemble with all the old original oem parts. Bike ran perfectly with no other work.
So I suggest you rebuild the carbs very carefully. Take out the emulsion tubes and make sure they are perfect. Make sure you can achieve a perfect clean stream of carb cleaner through every passageway and drilling. Try to get all original Mikuni parts always! It is extremely rare to need to replace anything in your carbs unless you damage something. Needles can wear, but an RD with that many miles still runs better with the ruined factory needles than the crappy "new" rebuild kit needles I've seen.
Those old oem needle ans seat assemblies will work better than new aftermarket if you clean and polish the bores with some fine steel wool and a toothpick. And, make sure you don't swap the fuel bowels. Only one has the drilling for the enricher on the left carb.
Set the float arms parallel to the gasget surface. look closely at the little tab that presses on the needle. If there is any mark, polish it 100% smooth with #600 sandpaper.
Start with #25 pilot, #180 main, needle clip in the middle. If the carbs are clean with all Mikuni parts and no damage, the bike will start and drive well enough to figure out if you need to change the mains. If it doesn't, leave the carbs alone and look elswhere.