Whilst LOOT is a powerful tool for modding many Bethesda titles, it shouldn't be used as a crutch for bad modding Hence, it's better to learn how to maintain your setup yourself, rather than having a program try do it for you. You should not use LOOT with TTW or FNV, and this is how you manage load order effectivelly. The following is a Load Order guide composed of tips from Tgspy (Frontier Dev), Roy Batty (TTW Dev), and the XEdit Team.