The chain being cleaned, ESPECIALLY/well lubed AND adjusted correctly will make a difference in shifting. It won't change any clunking,
Lowering the idle to about 1,050, 1,100 RPMs WILL help dropping into first gear (and holding the clutch in to keep the box from spinning up). Less RPMs, impact for parts to "go together"(similar as holding in the clutch). More engine braking as well..
Follow the directions to the letter for your chain adjustment. I've found 2", TOTAL up and down, at the tightest point, well lubed works best.
Too tight, you'll hear whining and other noise from the bike, maybe some extra vibs..
Too loose and shifting gets sloppy, (harder to shift smoothly). The excess play is felt thru the drive train and makes shifting not nearly as good.
I have 27,000 miles on my bike now (abused by the PO for the first 4,500 miles). Not to start another oil thread, but I've found Motul semi-synthetic 10w40 to work best. NO issues after first gear (still a very slight clunk going into first) what so ever. 7100, same weight seemed thinner and no noticeable difference.