All my cosmetic mods are gone?

I started rdr2 to play after not playing in a while. I noticed as i started it steam was updating it, I thought: ok.. that could mean it’s messing up my mods but probably not.

Well unfortunately for me it did.

It looks like all my gameplay mods are still there like jobs, rampage trainer,etc but all my cosmetic mods like fixing epilogue John’s face and WhyEm’d DLC are gone. The weird thing is they still are in my lml folder but not working in the game.

I would appreciate if anyone knew if there was a way to get them back without reinstalling them all.