Any app that needs to save files in your home directory, which all the traditional apps do (Gimp, Inkscape, *Office...), has to have r/w access to your home directory (duh).
So I would venture to say that this is all misleading marketing, which is mostly what the OP complains about too.
It all boils down to the same discussion we had 20 years ago: Linux proponents talked about how much better it was when it comes to viruses because only your $HOME would be affected, somehow missing to realize that in mostly single user desktops, that was the only thing anyone really cared about.
(I've exclusively used GNU/Linux systems since 1999, but not for made-up reasons like that :))
Flatpak/snap model is the one where app controls your data (which allows them to only need access to a certain subdirectory of $HOME—think Steam or Spotify), instead of allowing you to group files related by topic instead.
And that's exactly the model I don't subscribe to :)