Helgen Reborn Special Edition !LINK!
Mathew Letter
It makes little difference what tools or scripts are said to fix the problem. Most if not all of them are completely unreliable. It's never as simple as just changing the flag to ESM. This sort of thing can cause those mods to break if certain conditions are not met to the standards the engine expects once that flag is set. Especially with quest aliases. You will often find they just don't fill. It could be that the change in load order is not compatible with expectations put forth by the original author. You can run into CTDs, broken quests, NPCs spawning where they don't belong, or not spawning at all, etc. There's a reason it was explained that way. It's not a fire and forget process. It will require extensive testing by someone intimately familiar with the work to verify that the change won't result in a broken mod. You have no idea how many people report errors to mod authors caused by this but leave out the fact that they've done this, causing them to spent countless hours chasing a bug that doesn't exist when the mod is used as given.
Ok, so I was playing around with my load order and I redownloaded all my mods that I ESMifyed. Project AHO, Darkend and Carved Brink were up top as master files as we can obviously see. But this time I downloaded the non master versions and they on the other hand are being placed by LOOT around not the top nor bottom but the middle of the load order. Helgen reborn is not too far from the top, JK's Skyrim and Magical College of Winterhold are placed by LOOT near the top.