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...I would not start out by assuming that ERA is right and xFIP is wrong season by season. Luck is volatile. BUT...I do believe that you can get a feel for pitchability and intelligence once you have ruled out luck stats.
Also...I don't think Bonderman is QUITE as bad as league...if only because the Tigers during his glory years were running out outfields that included slugs like Magglio Ordonez and meatheads like Curtis Granderson and Marcus Thames. That team was worse than normal for allowing XBH and ran consistently poor DERs. His BABIP is inde3ed a little elevated compared to league average for that period (which was .296) and his XBH rate is not much higher than the entire Tigers' club's XBH rate.