What is the ruling on using computer programs at the university that may be pirated or unlicensed, whether the university purchased them or the professor is using them?

There is no harm in using computers at the university even if there are programs of unknown origin. The default assumption is that what people possess belongs to them through legitimate means until proven otherwise. There is also no harm in attending the classes of a professor who uses pirated software illegally, because the student is compelled to attend, and the professor bears the sin of his actions.