It's honestly been so long since I first installed it, that I can't be certain which parts of Moonrain I may have installed, but I want to say that I did the standard version of Moonrain which overwrote the original Glass Domes mod. The only extra file that I may have installed from Moonrain's optionals, is the 'even more transparency' folder, because I do recall considering it, but I am not super sure if I went through with it or not haha.
In my load order, I actually don't have many mods affecting the whole of Vivec, so I am not sure that my Glass Domes of Vivec.esp location would help very much, but in case it does, it is placed above and takes priority over the few mods that do affect Vivec for me (those being, Guar stables of Vivec.esp, Temple Canton - ESO Inspired.esp, and Vivec Striderport.esp). If I remember correctly, all 3 Glass Dome mods (original Glass Domes, Moonrain, and my patch) should all have just a single .esp between them, because the original mod is the only one that supplies an .esp for the load order, so it should just be a matter of seeing which other Vivec mods you need to have below the Glass Domes of Vivec.esp
So, I basically installed the Atlased Texture first, then installed Glass Domes of Vicec, then Moonrain overwrote its meshes/textures, and finally I overwrote the distance meshes with this mod.
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In my load order, I actually don't have many mods affecting the whole of Vivec, so I am not sure that my Glass Domes of Vivec.esp location would help very much, but in case it does, it is placed above and takes priority over the few mods that do affect Vivec for me (those being, Guar stables of Vivec.esp, Temple Canton - ESO Inspired.esp, and Vivec Striderport.esp). If I remember correctly, all 3 Glass Dome mods (original Glass Domes, Moonrain, and my patch) should all have just a single .esp between them, because the original mod is the only one that supplies an .esp for the load order, so it should just be a matter of seeing which other Vivec mods you need to have below the Glass Domes of Vivec.esp
So, I basically installed the Atlased Texture first, then installed Glass Domes of Vicec, then Moonrain overwrote its meshes/textures, and finally I overwrote the distance meshes with this mod.
Hope that helps a little bit at least!