I do everything "manually": I add/remove stuff to my VaM using a File Explorer (I really recommend using
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for this :-D). I only add a single scene/look/etc. at a time, then start VaM to test it, and if it works and I like it, I'll keep it, otherwise it gets deleted again right away.
And I like to organize stuff -- I have a bunch of subfolders in AddonPackages, I save/rename each scene/look/etc. using my own "naming convention" (and afterwards I "hide" the original scene) which helps to keep everything sorted and "clean".
Looks I save using a template I made for myself, so each look I want to load has basically the same screenshot.
Keeping your VaM installation organized is key to not run into any issues. Crashes? I don't have any. Animations not working? Not for me. Audio issues? Never had any. But on the other hand my VaM folder is just a few gigabytes (~150 gigs at most), and not a couple of hundred gigabytes as I've seen in some screenshots before. Why would I need thousands of looks/scenes and such? I get it that "collectors" do feel the urge to download and install everything, but that's just not my cup of tea.