I got all the texture edited mods I use to work 100% on every game restart by following these instructions:

Mod files that modify in-game textures now have to be unpacked with LS Tools and the unpacked files need to be put in C:\Program Files (x86)\Steam\SteamApps\common\ Divinity - Original Sin\ Data\Public\Main\Assets maintaining folder structure. If you don't do this the mods will only work randomly. Don't put the modded .pak files in the C:\Program Files (x86)\Steam\SteamApps\common\ Divinity - Original Sin\ Data folder anymore.