I think what’s tricky here is that saying “the physical universe is made of matter and energy” isn’t actually incorrect, it’s just scoped. That’s what classes like physics are equipped to study. Questions about being, meaning, purpose, or God simply fall outside that domain and belong to philosophy or theology.
And, perhaps part of the issue is that the utility of classes like philosophy or theology aren't as immediately measurable, even though it may play a foundational role in shaping how we understand knowledge, science, and reality itself. People go to school to become mechanics, electricians, doctors, or even tech schools to become carpenters and engineers. These fields have immediate and clear utility.
People don't go to school for philosophy because it's not clear what the tangible outcome will be, even if it is an important field of study.