I am currently using Linux Mint (after a long stint of using MX Linux) after learning it handles Nvidia graphics cards flawlessly, which I am grateful for. Whatever grief I have given Ubuntu in the past, I take it back because when they make something work, it is solid.
Anyways, like most distros these days, Flatpaks show up alongside native packages in the package manager / app store. I used to have a bias towards getting the natively packed version, but these days, I am choosing Flatpaks, precisely because I know they will be the latest version.
This includes Blender, Cura, Prusaslicer, and just now QBittorrent. I know this is probably dumb, but I choose the version based on which has the nicer icon.
On my main PC I use for gaming I run Arch and prefer native packages whenever I can use them. I'm quite happy to have this one computer by a hobby project, and native applications just make more sense on something as up to date as Arch when they're available. I have started to prefer Flatpak over AUR packages though. The AUR is pretty overrated, in my opinion.
On my laptop and anything else I install Linux on I usually just use LMDE, and I'll often prefer the Flatpak, just because it's way more up to date. There are some apps that Mint keeps up to date native versions of, and there are some apps that come preinstalled that I just don't care about having the latest version of, but for everything else I usually just download the Flatpak.