If you're making a lot of changes to texture mods, you should start from a clean install to avoid any conflicts from mods you got rid of. You also may need to change how the Bethesda high-res pack textures are loaded. Here's how Xenius describes it from the XCE texture mod:
1. Disable the two .esp files HighResTexturePack01.esp and HighResTexturePack02.esp
2. Go to the Documents\My Games\Skyrim folder and open Skyrim.ini
3. Find the [Archive] section in the .ini file
4. Add the following two entries: HighResTexturePack01.bsa, HighResTexturePack02.bsa
5. Your .ini should look like
this
6. Now you should be able to use texture replacements as usual
Also, like I mentioned earler, get a mod manager like
Nexus Mod Manager to install everything for you. If something is causing corruption, you can easily disable and delete it without having to manually track down all the various files it changed, or simply change the load order of ESP files so that they don't interfere with each other. Start with a clean install (uninstall through Steam, delete the Skyrim folder, redownload through Steam along with the high res texture packs), then install Nexus Mod Manager and use it to install every mod you use.
I can post a more detailed walkthrough later if you're having issues or people want it.