I think that should very much depend on the severity and the statistical impact of the bug. As long as the long doesn't raise the deaths-per-mile-driven number above what humans would be doing, I would say it would be ok to just leave it running and just update once it is fixed.
The goal is to get cars driving better than humans (which btw they already do by a huge margin, even with the fsd beta). so disabling the autopilot because of a potential bug would be condemning a lot more people to death than leaving it in. Interesting variation of the trolley problem i guess