Wiiforbabies

So I did a clean windows install today. I copied the Fallout folder/ nexus folder / documents folder from a backup I made. While I was checking if everything was transfered smooth I noticed that part of the mods didnt work. The mod folder in the Fallout direct is empty, along with the instaled mods in NMM; however the plugins are still there. Even if I reinstall the mods they still dont work. e.i.: - weapons: they still appear in the inventory, I can still wear and fire them, but they are invisible, This is so for the varmint rifle and I-88 mod - armour and cloths: all transparant so basicly you have floating feet hands and heads. Thekite scoopdigger mod etc Other mods like the the enhanced explosives mod etc are working just fine So i wonder what is wrong? I got to say I havent played fallout4 in like 6 months so it might not be due to the clean install. Can anyone help me? Thanks in advance.

Right now I am playing on very hard difficulty setting, lvl 118. IMO BoS members are just way too weak. I started to notice this when i passed lvl 100 and upped the difficulty setting (from normal to very hard). Just recently I watched a fight: 3 BoS vetribirds vs a group of 5-6 super mutant primus. The vetribirds dropped 2 knights 1 paladin en 3 star paladins. They just got mowed down by the mutants, 2 of them armed with miniguns. I think this is because of the weak weapons the vetribirds dropped BoS members have. I have never seen them with a minigun or a gatlin laser, while those guarding checkpoints often wear them. I dont know if there would be any demand for this mod, it is even possible or that other factions also need some buff. I do think BoS needs a serious buff. Their advanced armour, weapons and technology compensates that, in most of the times, they are outnumbered by the enemies. But if you fight vs a minigun, you at least need a gatlin laser to even the odds. :)