I'm scratching my head quite a bit here trying to figure this out, as I was under the impression that I completely understood my issue and how to fix it, but it seems it has only gotten worse.
The following might have loads of useless information but I want to give as much detail as possible in case any of it is crucial:
When I had the bike up and running the other day, it sat nicely at 1000 rpm. All of the throttle butterflies were balanced, however I made the mistake of using the main idle stop screw (the one at the back of the throttle bodies) to set the idle, not the brass screws, I left the brass screws fully seated. I took the bike out for a ride and I noticed the bike would stall when rolling off the throttle quickly. Then about 5 miles later the fuel pump became very loud and the bike started to stutter, which I determined to be because of a clogged pump screen which is now cleaned and fixed and my pump sounds normal. I came to the conclusion that this was my issue: I used the throttle stop screw to set the idle, propping the butterflies too far open which meant that the bike could run with the brass screws seated. My solution as I thought was to set the throttle stop screw to a very low baseline (the lowest rpm the bike can continue running at) as it seems to be intended for, and then use the brass screws to return the bike to a balanced idle of 950 ish rpm. about 30 minutes ago I went through this procedure and got the throttle bodies to have a balanced vacuum of about 10 inHG, however the bike now does not idle steadily. It wanders all over the place from 900-1100 rpm and sounds like its trying to die, additionally when I give it throttle up to about 2500 it does not smooth out much and occasionally backfires. I decided to check again for vacuum leaks with an acetylene torch and found nothing. Lastly, I read in a forum that k bikes should not be able to run with the oil cap taken off as it will cause a massive vacuum leak, however mine continues to idle erratically with no change when I unscrew the cap completely.
Sorry for the word salad here, I figure the devil is most likely in the details with this one so I should probably give as much detail as possible.