Assuming the idle mixture screws aren't too far out of whack, I doubt they have much effect on carb sync, especially off-idle sync which is the most important thing to get right during carb sync.
On my bike, I have to compromise with an air screw setting that balances overrun "popping" and a off-idle stumble as I pick up the throttle - I accept a little lean popping to get a lean enough mixture to avoid the stumble. Whether that's inherent in the beast, just 40-yo carbs doing their thing, or a PO screwed up the jetting, I don't know.
- Mark