I would aim for around 0.0015 " clearance for oil. You could probably get a way with 1 thou. Make sure the bushings are running true in line. Carl-Erik has a post here somewhere about the variations in oil drillings, there should be one to drain into the shaft from above, and one to drain back into case. Some also have a spiral in the shaft to feed oil back.
Make sure your engine breather is working fine, and also the small air bleed hole at the top of the trans tower is clear to vent.
Make sure there is no excessive end float in the clutch basket drive gear ( ie the end float on the trans mainshaft is not too excessive).
Don't run the belt too tight.
I have recently removed an aftermarket DU7 shaped alternator from a friends bike. It had way too much pull on it. It was stiffer to turn by hand thru the magnets than the alternator on my 350 V8 Chevrolet. Had ripped the bushing to pieces in several hundred miles. It did not produce a decent charge anyway, maybe it just needed to rev faster.
I know of several bikes running small lawn tractor or bay suv alternators that have way less pull and have caused no such issues over several thousand miles, altho they have more resistance than a traditional three brush generator.
Hope some of this helps, let us know how you go.
Tim