It's stored at%localappdata% Skyrim plugins.txt (can be run from 'Start' » 'Search' or 'Run'), or C: Users [username] AppData Local Skyrim plugins.txt. You can backup and restore that if you want. IMO, it's better to just use to take care of the mods' load order. 
LOOT can automatically decide the optimal load order of mods. Also: While sorting, LOOT checks for load order errors (such as incompatibilities and missing requirements) and notifies you of any issues that it detects. It also provides thousands of plugin-specific messages, such as usage notes and bug warnings, to help keep your game healthy.
By: anonymous 2012-10-26 08:17:30: IsspJU clbuaytzpshw, [url=[link=http.
I use Nexus Mod Manager and lately when I start the vanilla Skyrim launcher it messes up the order of my installed mods. Just launch Skyrim or SKSE through the Nexus Mod Manager, to avoid the vanilla launcher messing up the load order of your installed mods. Da bei zhou download free mp3 player.
So even though LOOT shows them, but no check marks and only says I have 5 active. I also have no Load Mods option on the Launcher. Now I decided to load the game up anyways. On the main screen, you can go to mods.
Now this is where you log into Bethesda.net. Now I dont use that, but I did notice that there was another option in there called Mod Order, or something like that. When I go in there, it shows all my esp's and everything as active and with a check mark. I can also confirm, despite LOOT saying they aren't activated, mine however are.
I was kinda going off of LOOT not showing them as active. See if that helps you guys and let me know.
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