A lot of people's don't understand the business of universities. It's not education.
The students are there as fundraisers. The ones who get scholarships are there to boost the reputation and desirability of the school and/or provide free labor.
Professors have the "publish or perish" rule for the same reason. They work their ass off 40 hours a week all year, but only about 10-15 are directly related to education, and that's only 30 weeks of the year (38 if they're also teaching summer courses). The rest of the time they're doing research to boost the university's prestige and get those juicy patents and grants.
And once you've gone into debt for 20 years to get the degree, they'll hound you for donations through the alumni foundation until the heat death of the universe.
As a Christian and former pastor, I'm 100% in favor of taxing religous organizations that exist to serve political interst in theory. Separation of church and state makes both institutions better. But it's difficult in practice. Short of a preacher saying to vote a certain way, it's difficult to nail down if they're being political.
Sometimes there are issues relevant to churches that become super political.
Matthew 25 says that Christians will be judged on their treatment of the poor, the hungry, the sick, the imprisoned, and the foreigners. It's pretty much the only time when Jesus directly threatens damnation. Our government is committing atrocities against all these groups. Should Trump have the power to effectively close churches that preach messages he doesn't like by taking them out of existence?