Apaukolypse

I reinstalled my game due to some issues and now Vortex has declared my entire modlist redundant and refuses to deploy them/show them in the load order in any way. What do?

New to the whole mod manager thing and trying to get the hang of it. So far I have: 1. Downloaded the Mods through Vortex 2. Installed them through Vortex 3. Enabled them. and I think I missed a step somewhere because none of the mods are showing up. I made sure that Vortex has the correct path to my game folder (It does) and am incredibly confused what I am missing.