==you can safely assume the MBA got there because of more nepotism and the non-MBA is the more valuable pick.==
Based on what? Cynicism?
Based on what? Cynicism?
They should be judged on how they perform in the job interview.
Yes, it's somewhat like "flipping the initial assumption upside down", but really it's just accounting for there being the opposite boost in the first place.
Candidates aren't solely judged on interview performance. Again, if things are extremely close, you'll have to include other data like career or education history to make the most informed choice.