Over the past year, I've merged a few mods together so my total load of mods is now about 150. Some have been really easy and some have been a royal pain. Currently I'm trying to create a new Skywind mod that pulls armor from one mod and weapons from another. I extracted the BSA files in \Meshes and \Textures. I've merged the two ESP files. Since my part is quests and dialogs, I was attempting to go ahead and create a new BSA with the now merged files. I may add in some scripts later.
But I'm noticing that all items from the mods are now purple without textures. I've tried the game with the files extracted and with them removed and using only the new BSA. Not sure why this doesn't work anymore. I have plenty of other mods merged without using a new BSA and they work fine. The BSA has the same name as the ESP. It shouldn't matter which way I put the files in the game, as long as they are there. Any ideas?

What tool was used to create
What tool was used to create BSA? You also need to be sure that the paths in BSA are correct.