>winget uses the same sources of truth as "Add/Remove programs" (msstore/appx and the "uninstall" group in the registry).
I find that behavior incredibly annoying. I mainly use Chocolatey, so every once in a while when a package is heavily outdated or missing from the repo I end up using Winget instead for convenience's sake. That means Winget keeps trying to update or manage Chocolatey packages, and as far as I know, there's no easy way to stop that.
The thing about Chocolatey is that, iirc, it’s still largely community members maintaining that registry. Not the best in a cybersecurity context, and some firms may have licensing against unauthorized distribution of their installer files like that.
Hence WinGet, a Microsoft owned and operated alternative that those firms may feel less jittery about.