At least when I was at university, those people generally didn't have the focus to graduate with good grades (or graduate at all for that matter). It's one thing to sit around and talk about all the 'out there' implications of quantum physics. It's an entirely different thing to get your quantum physics course work in on time and study enough to pass the exam.

I think the problem comes more from uncritically accepting standard practices or beliefs, not from just doing something superficially different from others.

Once in grad school the reality of winning grants in 6-12 month cycles meant that the most successful PhD's were really much better at marshaling undergrads and master's students to do their work for them, rather than being elite, creative scientists themselves. I saw a lot of time being wasted tweaking previous research into something 'novel' so we could cite ourselves as much as possible and still put up a good introduction about doing something to improve society.

Ultimately, the lack of long-term vision coupled with a pretty unstable PI made me reconsider the academia route. As an aside, I was doing all of my advisor's "peer-review" of articles, reproducibility is a huge issue, I saw a ton of funky stuff submitted that I personally didn't have the time or budget to check, but couldn't in good faith outright reject, because I was also sending out papers to be reviewed.