I have used Linux desktops for years and have quite literally never used any of those things (except for non-Gnome DE, which was slightly less "don't make me think" so I eventually went back to gnome). Yes, even xterm. Other tools might have been shelling out to those other utilities you mentioned for me, I guess?
Point is, there are at least some reasonable use cases that don't engage with that stuff. I truly don't know how much of the display stack of my current distro is X or Wayland-related code; I have never had reason to care. I don't have a dog in this particular fight, but there are lots of users who use Linux desktops not because they are customizable, modular, or whatever, but because a) it's a free OS, and b) it's similar to environments we target for development at our jobs. Despite the vocal-ness of customization advocates, I suspect that the vast majority of desktop Linux users are "dark matter" that fall into this category.
There's a large group of users that goes to great lengths to customize their desktop experience. This kind of change understandably frustrates them. But it's important to understand that many of us just don't care very much.
Can it run gnome-terminal and Firefox? Can I switch resolutions and do multiple displays? That covers a vast majority of what I ever need from a graphical desktop. Beyond that I don't really care how the sausage is made.
I would argue that not having to use those tools to have a happy working environment makes it further advanced, rather than behind.
I maintain an embedded Linux system which uses Wayland as a compositor for Qt. I use sysfs to EG turn off cursors and set the display mode so I can blit a splashscreen. And sysfs can be used to rotate the console, change display modes, etc..
On my desktop I don't use any of the tools you're listing and haven't needed then for almost 12 years. The wm handles that for me.
As for those other things you mention (xprop, etc.), I don't even know what they are, so I assume I've never used them.
I think you underestimate the degree to which desktop Linux users just want a working system with sane defaults. Maybe you personally value having all the knobs to twiddle, but I'd suggest you're an outlier.
Wayland ecosystem is literally decades away from being usable and it's very unlikely to survive those decades beyond maybe being a niche project for some special purpose devices, not linux desktop though.