Scotty....Here's one. Check gearbox mainshaft is not binding in the sleeve gear bush.
In neutral, engine stopped, the raised rear wheel should rotate easily, any binding of the bush and shaft will be apparent. Relative speeds of the shaft and sleeve gear are greatest at start off, lessening progressively as you go up the box, in top gear they are locked together, so the symptoms disappear. Gear selection is not affected, the problem is only apparent when the parts move relative to each other. Well worth a simple check.
Swarfy.