Not sure what you mean by core things. I removed all snaps by purging snapd (it will remove all snap packages), nothing bad happened. I am running unity but I logged into gnome shell just to see if anything was broken and everything seemed fine. I also disabled tracker (which is a gnome shell thing I think) and nothing bad happened but now cpu is not running at 100% all the time and slowing things down.
Personally I prefer flatpak for things where I can't find in the standard repo because of local access control (and it doesn't mount a bunch of volumes)
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