Darknut's Better Dwemer Ruin Towers mod is just a direct replacement for the excising 3 tower meshes.
It doesn't address the issue of all the towers being the same (within type) everywhere in Morrowind.
Darknut's More Diverse Dwemer Ruins will address this by adding some variety.
This will be accomplished by making changes to the excising ( new) meshes in coloring, texturing & more or less damage & decay. Some of it will be subtle & some will be in your face.
The style will obviously still be the same but each location won't look exactly the same.
I'm making some unique new meshes as well.
Pic of some I have done so far.
http://imgur.com/zDo9aiq