Anon, unlike mr Lichtenstein’s intuition -defined judaism, real judaism has laws. And those laws allow the honoring of bad people for the sake of maintaining Torah institutions, as per the osak of rav moshe in igros moshe.
Now if the money itself is not kosher, meaning it was earned in a way that is fraudulent in halacha, then that money is not supposed to be accepted. It’s treifeneh gelt. The beis halevi says that this is why parshas terumah is next to mishpatim, that only kosher money can be used for jewish institutions.
That doesn’t mean things that your intuition says are not kosher are considered stealing. We have a shulchan aruch choshen mishpat for that. And many illegal activities are not at all forbidden in halacha, including insider trading, for one example.