I am setting up a new modlist, and testing as I go along. Last mod I installed was The Great City of Winterhold (which is great BTW) but when running around it, I noticed a few naked NPCs.

Then I coc to Whiterun, to do more testing and Aela, Farkas and Ria were fighting the Giant on the farm with nothing on, and no weapons (they were fighting unarmed!)

I opened Aela on SSEDIT and she has no issues - otft record, inventory with weapons all seem in order. Wondering what is causing this and how I can fix it.

https://loadorderlibrary.com/lists/purush

Edit 1: see NSFW pic (because they are all naked) with More Informative Console here - https://i.imgur.com/p4kAD2B.jpeg

Is it a bad sign if the Base and the Ref are referring to different ESPs?

Edit 2: I worked it out. I had the first version of this mod - https://www.nexusmods.com/skyrimspecialedition/mods/109152. It was applying to NPCs, and they were naked because they were too low level for their gear. Because it is all script injected, it wasn't clear that there were any issues when looking at SSEEdit. The dangers of runtime-patching, manifest!