The graphics mod does just the opposite of T.O.P. It will override all of the particle files. Best not to use it, or any other enhancement mod, because the enhancement mods will override almost everything in T.O.P., and increase your ram usage due to the extra heavy eye candy that is included with those mods.
I know DS plans on incorporating what we have done here. I dont know about the other enhancement projects. Most of them involve "improving" particles, and planets. Which usually means higher resolution textures. In T.O.P. we lowered the resolutions, and changed the formats to all dds. When you run a enhancement mod over this one you defeat the entire purpose of this mod.
The messed up planets and skybox's is due to the fact that we use different meshes for both, and the other mod is using its textures over our meshes.