The goal of PhD programs has never been to have every student become a professor. Also, strong STEM PhD students generally don't need much help finding jobs after they graduate. Claiming that PhD students "aren't prepared" for industry careers is simply saying that students lack industry experience (obviously, being students!).

The problem here -- and why universities even do research at all -- is that industry's support of basic science is not very stable. At least when I was in school, industry research generally was more applied and engineering-focused.