Escaping from annoying micromanagement pop-ups is a big part of why I use Linux. If this changes and it becomes as naggy as Windows I might have to move to Openbsd :)
From that angle if the permission dialogs bothered you then you could just recompile flatpak to unconditionally approve all dialogs. (Maybe there is even a setting for this already?) Of course as a sibling comment has said, this would be pretty dangerous, almost equivalent to using windows without UAC, or sudo with NOPASSWD.
In 2021, UNIXen are not as isolated as before. A lot of closed source software is creeping into the ecosystem. I'm not against that, but being able to limit them to sandboxes is a good thing IMHO.
I run VMs for such software, but a lighter weight solution is may prove more useful for some scenarios.
Parent here. Whoa, you're reading too deep into that. How do you think that I envision such a future? Even I didn't know I've envisioned such a future.
If I had time to implement such an elaborate subsystem, I'd do it as a user-configurable kernel level interface. Like a more user-configurable, more flexible version of SELinux or AppArmor.
The first thing I'd implement would be a global on/off switch, too. I've seen and worked in enough projects where keeping it on was the only sensible choice, and I know enough that some people (incl. me in some scenarios) would like to keep it turned off.
For clarity, I neither support snaps, commercialization of Linux distributions to create commercial lock-ins, centralizing packages like Snap and dumbing down Linux. I already don't touch Chrome, Electron, VSCode and other pseudo opensource and pseudo free software and use some paid, cross-platform closed source software since they solve some real problems of mine, but I wouldn't dream of a Linux like you're creating by reading my simple comment.
Wow.