Hang fire until ign advance is checked.
Valve clearances now done but please post some pictures of cam area and bolts, valve springs should all have a yellow top meaning springs fitted the right way up.
I have come across one that had one incorrectly fitted spring from the factory and several ones fitted upsidedown by owners.
Only one copper washer on each centre bolts holding the cylinder head down ?
How was cam timing marks when crank set to T and how is cam chain lift ?
Compression test, even "thumb" test, rough and ready.
When checking ign advance, check one HT lead up to say 8k revs, then check the other the same.
Red neon plug caps that flash as they pass HT are good real world bits of testing kit, but you will need to make a "connector".
They can be used when riding the bike, and used for HT comparison.
You could make a HT coil tester but you have the bike for an "acid test".
How's the air filter, and, a long shot on an SD, blockage/reduction of air into the air box, such as a rag under the seat or restriction caused by the seat when all your weight is sitting on it.
Balance chain adjustment adjustment can wait until the clutch is done...
Carbs are your last port of call but you have removed those and thouroly clean them ?
Maybe air problem to main jet emulsion tube for the "rich" carb ?
As said do/check all the other stuff, carbs last.