I think people are being unfair to Wells. He's obviously an accomplished man, and is likely quite brilliant. The problem seems to be more of an inability to translate that brilliance into sports culture, as we saw in the Martin case long before deflategate came along.
His report, though, is really shoddy work, I'll grant that. I give the benefit of the doubt, such as it is, that he was stretching to reach a conclusion instead of just getting the facts, because there are essentially no incriminating facts that can withstand even moderate scrutiny.