I have found that mine wobbles a lot more when the rear-tyre is squared-off. It also affects handling on roundabouts (slow speed tight corners).
Its something to do with how the bike 'auto-leans' when it corrects for deviations from a pre-determined line as the front end casters.
It has to climb up the 'corner' on the rear-tyre suddenly and it can "fall down" just as suddenly.
I cure this problem by puting it on its centre-stand in 2nd gear with the engine running and take a coarse file (rasp) to shave a few mm off the rear tyre each side where the corner forms.
(since you clearly aren't going to use that bit of rubber, it doesn't matter)
It gets worse, of course, if you bat down a motorway at 90 a lot.