The freaking point is that basically anything worth running will have that amount of access, even Flatpaks. And you don't freaking know what's malicious before hand.

I think that depends on your point of view. I wouldn't run a program on my computer unless I were sure that it's not malicious. And if you mean that some program I already trust could be exploited, that's true even for the Linux kernel or any sandbox / security solution you would come up with. I'm not denying that there's always a risk, but there's nothing good in running arbitrary code that you can't trust.