That will make sure you haven't forgotten any stragglers The best way to start super fresh, is to just wipe the game folder and install fresh from Steam. Is there any way to wipe ALL of the mods for Skyrim at once? I plan on deleting my entire Skyrim folder/files and reinstalling them anyways for a fully fresh start.
However, I don't want to manually remove over 180 mods, where it sometimes takes 5 minutes just to uninstall/remove 1 mod!! I have a really good Fallout 4 setup that I want to keep, but I want to redo ALL of my Skyrim stuff and start fresh. Mods from Nexus as well as Mods from Files have all installed well and I really like the details. Vortex has worked very well for me, both with Fallout 4 and Skyrim.