Innocent of what? Nobody is accusing Epstein of trying to do anything suspect via the MIT media lab. Anyone who thought he'd be wandering around MIT dragging trafficked women around with him is probably hypersensitive. Or Epstein was outrageously foolish. Either way; the reasonable assumption is that those women were probably not trafficked.
The argument here is "nobody should associate with Epstine" vs. "We can isolate the good and the bad parts of Epstine's actions and keep them somewhat separate". There is no need for someone to resign because they happened to know Epstien in a professional capacity.