Super. Thank both of you for the comments on the #50 jet. I already have the carbs back on, but next chance I get those will get pulled. Having the part number 92064-050 you gave me is a helpful. My kits I find, just didn't have those provided. I would prefer to keep this bike as stock as possible. Replacing the #50 would be my preference but growing up in the days of silly emissions 70's, removing the jets makes sense. I had a lot of really bad running cars in the 70's. End of editorial comment on emissions.
Warren, Yes I am at 3mm on the clear tube tests. The fuel/air mix screw is at 1 1/4 now. Although my choke was on, I could get an RPM change as I changed the mix screw up to 2-3 turns out. I put it back to 1 1/4 starting point. My thinking is with the choke out 1/2, I am not getting a valid fuel mix adjustment on the screw. I prefer to have it off before deciding the proper air mix.
Neil Conway from Facebook's KZ650 group suggests to run the bike a long distance with the choke 1/2 and it will allow me to close it once well run. His comment on #50 being removed": "see no reason not to pull them. All the z650's I have done need choke for a good while dependant on temperature and will often die if you drop the choke too far so I always start and ride straight off as riding gets more heat into the cylinders more quickly."
Also thank you for correcting me on what happens when I shut off the choke. It is not flooding the engine but closing the fuel off...more air. Ok, good to know.I will rethink handling my problems. Also, Neil Conway is telling me similar...to leave the choke on is fairly normal. Makes sense to me because I am garage testing this in the winter time 20-30 degrees F. The engine gets warm auto 200 degrees but certainly the air temperer being mixed is not Texas heat. Chicago cold.
On carb sync'ing, they have been sync using my 4 vacuum gauges. I will redo them once a get a cleaner idle. I am about there now. I also use the Gunsen Color tester on each cylinder. I have converted several bikes to Dyna S ignitions including this bike a year ago. I just ran into problems with this one. So electronic ignition should be (probably) is better, but for now I am back to old school points on this girl.
Thanks again for ideas/comments and education. John