They are awesome but personally I don't use them. I have an obsession with memory management. Flatpak apps don't share libraries so they get chunky at times. This shouldn't be a problem for most people. It's a personal problem.
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It’s bloated. Not as bad as snap though. xbps for the win
I'm a bit "eh" on flatpak. The only benefit I see is that it's sometimes more up-to-date than what I can get from an LTS package repository. As a heavy CLI user they force me to find and click icons which is irritating (yeah - I know about flatpak run something.I.always.forget
but that's even worse somehow).
I've hit occasional issues with applications being too locked-down. Like with Darktable only being able to see things in $HOME/Pictures. But I keep my photography work in a different location so it can't see it. I had to jump through some odd hoops to fix that. Not a problem of flatpak itself per se but something you can expect when dealing with package makers.
I fall back on flatpak if the version available through the standard package manager is too out-of-date for my liking. Other than that I can't be bothered.
EDIT: Okay - for people who think they're being "helpful" by telling me that "aliases are a thing" just stop. I'm not going to workaround a broken system. I'm going to use another one that isn't broken (or less broken).
Everything I've gotten as a flatpak has been borked in one way or another. I only use it if there is literally no other option available.
It's a decent packaging solution.
regarding the sandboxing, all the negatives are present with none of the benefits, wish they'd just rip that shit out
if you want to run software you don't trust, firejail it or get it's snap
My totally unscientific opinion (with a double-your-money-back guarantee!):
I'm not crazy about either Flatpak or Snap for that matter as there's so much backend baggage for both as well as certain hurdles regarding privileges and access to the file system (somebody please correct me if I'm wrong or working with dated information.)
My other completely prejudiced, unfounded bias against Flatpak is that it appears to have been adopted by RedHat as "the one true way," and what with IBM's/RedHat's behaviour anti-FOSS behaviour lately, plus I've almost always have been an apt
user, I find it a pill hard to swallow.
Me, say what you will about the security issues and its other flaws, but I like AppImage.