According to Door Knocker, almost half of the portals are unavailable on Ubuntu 16.04, compared to only one unavailable on Fedora 39 with GNOME, which means Flatpaks running here may have more limited capabilities than usual.
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Although runtimes are shared the different versions can take up quite a bit of space. This is a common criticism of Flatpak and one of the major drawbacks compared to the distro’s native package manager.
It’s actually not that much of a concern, since Flatpak does deduplication behind the scenes - yes, even between different versions of runtimes.
https://blogs.gnome.org/wjjt/2021/11/24/on-flatpak-disk-usage-and-deduplication/