At a Loss for How to Fix Issue with Nexus Mod Manager and Fallout 4

[ReaverCam]

So I have my folder paths set up (Nexus Mod Manager/Games/Fallout4/Mods & InstallInfo, respectively) but no matter how I point Nexus Mod Manager at them, whether after uninstalling and reinstalling or through config, it goes through every mod and says it cannot be found, but another version was, even though they're the same versions. (i.e. the missing version is 1.6, the updated version is 1.6) and requests I either update the mod or point to a different folder path and put the mod in there (which is already is). Even if I update every single mod (to the same version already installed) it will do this same thing if I close and reopen NMM. Is there any way to restart NMM's link with my Fallout 4 data folder (which already has my mods without it trying to go through my old mods first?