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But why?
Probably because having two separate dependency management solutions can lead to a lot of needless headaches.
And it makes particular sense for Gnome to switch over, since Gnome is focused on user space apps. Flatpaks should generally be more relevant and lower risk, long term, since they don’t require root privileges to install.
I don’t believe in anything supernatural, but I’m pretty sure wiper blade attachment designs were somehow still born in the deepest fires of hell.