I can help you with skins. If the models change then the model files need to go in dod\models\weapons. If it's just a graphical change or if it is both graphical and model then the graphical files go in dod\materials\models\weapons\ either v_weapons or w_weapons.
I once had that Wile E. Coyote skin/dod update which was for everything. It was for skins, the game-menu, the in game menus and chat and health bars and gun sounds. It was cool, but I wanted the real thing after a few months. I changed it back more specifically to be able to see the spectators which I couldnt do when I installed it. But, perhaps thats changed now.