Anyway, I managed to break Morrowind again after just having done a clean install yesterday. It was working pretty well (although some mods that didn't use ESPs just weren't doing anything) until I started moving things around with Wrye Mash, and now it's not working at all.
Also, the load order I have setup in Wrye Mash hasn't carried over to my Morrowind config file and I don't know why (which could be the problem?). So when I post the mod list my load order's going to look scrambled and just nonsensical, but I assure you it doesn't look that bad in Wrye.
MODS
GameFile0=Bloodmoon Landscape Overhaul 1.0.esm
GameFile1=Bloodmoon.esm
GameFile2=Book Rotate.esm
GameFile3=Hilgya the Seamstress.esm
GameFile4=MCA.esm
GameFile5=Morrowind Patch v1.6.3.esm
GameFile6=Morrowind.esm
GameFile7=SG-MW-ecology-BM.esm
GameFile8=THE Morrowind NPC Makeover.esm
GameFile9=TR_Data.esm
GameFile10=TR_Map1.esm
GameFile11=Tribunal.esm
GameFile12=Ascadian Rose Cottage v1.1 PATCH [Korana, ed. Dark Diva, fixed].esp
GameFile13=Ascadian Rose Cottage v1.1 [Korana, ed. Dark Diva, fixed].esp
GameFile14=BB Dark Brotherhood by Westly.esp
GameFile15=BB2_Peasant_Gowns.esp
GameFile16=BLLDV_ALL.esp
GameFile17=Better Bodies.esp
GameFile18=Better Clothes_v1.1.esp
GameFile19=Book Jackets - Bloodmoon - BookRotate.esp
GameFile20=Book Jackets - Morrowind - BookRotate.esp
GameFile21=Book Jackets - Tribunal - BookRotate.esp
GameFile22=Book Rotate - Bloodmoon v5.3.esp
GameFile23=Book Rotate - Morrowind v1.1.esp
GameFile24=Book Rotate - Tribunal v5.3.esp
GameFile25=Corean_Hair_in_Morrowind.esp
GameFile26=Drug Realism.esp
GameFile27=Fliggerty's Armor Project 2.esp
GameFile28=Improved_No_Glow_v1-MW_Trib_Blood.esp
GameFile29=Kaylas_Kick-Knacks.esp
GameFile30=Key Replacer MW.esp
GameFile31=Key Replacer Trib & BM.esp
GameFile32=MCA - Guards Patch.esp
GameFile33=MCA - More Enemies.esp
GameFile34=MCA - NOM Patch.esp
GameFile35=MCA - Vampire Realism Patch.esp
GameFile36=MN_Breton_Vampires_1_v2.esp
GameFile37=MN_Breton_Vampires_2_v2.esp
GameFile38=MN_Breton_Vampires_3_v2.esp
GameFile39=MN_DarkElf_Vampires_1_v2.esp
GameFile40=MN_DarkElf_Vampires_2_v2.esp
GameFile41=MN_DarkElf_Vampires_3_v2.esp
GameFile42=MN_DarkElf_Vampires_4_v2.esp
GameFile43=MN_HighElf_Vampires_1v2.esp
GameFile44=MN_HighElf_Vampires_2v2.esp
GameFile45=MN_HighElf_Vampires_3v2.esp
GameFile46=MN_HighElf_Vampires_4v2.esp
GameFile47=MN_Redguard_Vampires_1v2.esp
GameFile48=MN_Redguard_Vampires_2v2.esp
GameFile49=MN_Redguard_Vampires_3v2.esp
GameFile50=MN_WoodElf_Vampires_1v2.esp
GameFile51=MN_WoodElf_Vampires_2v2.esp
GameFile52=MN_WoodElf_Vampires_3v2.esp
GameFile53=MN_WoodElf_Vampires_4v2.esp
GameFile54=Marksman Enhanced v1.2.esp
GameFile55=NOM 2.13.esp
GameFile56=Nymeria's Faster Walk.esp
GameFile57=Nymeria's Monthly Respawn.esp
GameFile58=SG-MW-ecology-BM-plugin.esp
GameFile59=Syc_AtHomeAlchemy.esp
GameFile60=THE Morrowind NPC Makeover.esp
GameFile61=Vampire Realism II - BM Add-On.esp
GameFile62=Vampire Realism II - TB Add-On.esp
GameFile63=Vampire Realism II.esp
GameFile64=Westly Presents-Dremora Markynaz.esp
GameFile65=Westly Presents-Night Song Armour.esp
GameFile66=Westly's Master Headpack X.esp
GameFile67=Windows Glow.esp
GameFile68=entertainers.esp
GameFile0=Bloodmoon Landscape Overhaul 1.0.esm
GameFile1=Bloodmoon.esm
GameFile2=Book Rotate.esm
GameFile3=Hilgya the Seamstress.esm
GameFile4=MCA.esm
GameFile5=Morrowind Patch v1.6.3.esm
GameFile6=Morrowind.esm
GameFile7=SG-MW-ecology-BM.esm
GameFile8=THE Morrowind NPC Makeover.esm
GameFile9=TR_Data.esm
GameFile10=TR_Map1.esm
GameFile11=Tribunal.esm
GameFile12=Ascadian Rose Cottage v1.1 PATCH [Korana, ed. Dark Diva, fixed].esp
GameFile13=Ascadian Rose Cottage v1.1 [Korana, ed. Dark Diva, fixed].esp
GameFile14=BB Dark Brotherhood by Westly.esp
GameFile15=BB2_Peasant_Gowns.esp
GameFile16=BLLDV_ALL.esp
GameFile17=Better Bodies.esp
GameFile18=Better Clothes_v1.1.esp
GameFile19=Book Jackets - Bloodmoon - BookRotate.esp
GameFile20=Book Jackets - Morrowind - BookRotate.esp
GameFile21=Book Jackets - Tribunal - BookRotate.esp
GameFile22=Book Rotate - Bloodmoon v5.3.esp
GameFile23=Book Rotate - Morrowind v1.1.esp
GameFile24=Book Rotate - Tribunal v5.3.esp
GameFile25=Corean_Hair_in_Morrowind.esp
GameFile26=Drug Realism.esp
GameFile27=Fliggerty's Armor Project 2.esp
GameFile28=Improved_No_Glow_v1-MW_Trib_Blood.esp
GameFile29=Kaylas_Kick-Knacks.esp
GameFile30=Key Replacer MW.esp
GameFile31=Key Replacer Trib & BM.esp
GameFile32=MCA - Guards Patch.esp
GameFile33=MCA - More Enemies.esp
GameFile34=MCA - NOM Patch.esp
GameFile35=MCA - Vampire Realism Patch.esp
GameFile36=MN_Breton_Vampires_1_v2.esp
GameFile37=MN_Breton_Vampires_2_v2.esp
GameFile38=MN_Breton_Vampires_3_v2.esp
GameFile39=MN_DarkElf_Vampires_1_v2.esp
GameFile40=MN_DarkElf_Vampires_2_v2.esp
GameFile41=MN_DarkElf_Vampires_3_v2.esp
GameFile42=MN_DarkElf_Vampires_4_v2.esp
GameFile43=MN_HighElf_Vampires_1v2.esp
GameFile44=MN_HighElf_Vampires_2v2.esp
GameFile45=MN_HighElf_Vampires_3v2.esp
GameFile46=MN_HighElf_Vampires_4v2.esp
GameFile47=MN_Redguard_Vampires_1v2.esp
GameFile48=MN_Redguard_Vampires_2v2.esp
GameFile49=MN_Redguard_Vampires_3v2.esp
GameFile50=MN_WoodElf_Vampires_1v2.esp
GameFile51=MN_WoodElf_Vampires_2v2.esp
GameFile52=MN_WoodElf_Vampires_3v2.esp
GameFile53=MN_WoodElf_Vampires_4v2.esp
GameFile54=Marksman Enhanced v1.2.esp
GameFile55=NOM 2.13.esp
GameFile56=Nymeria's Faster Walk.esp
GameFile57=Nymeria's Monthly Respawn.esp
GameFile58=SG-MW-ecology-BM-plugin.esp
GameFile59=Syc_AtHomeAlchemy.esp
GameFile60=THE Morrowind NPC Makeover.esp
GameFile61=Vampire Realism II - BM Add-On.esp
GameFile62=Vampire Realism II - TB Add-On.esp
GameFile63=Vampire Realism II.esp
GameFile64=Westly Presents-Dremora Markynaz.esp
GameFile65=Westly Presents-Night Song Armour.esp
GameFile66=Westly's Master Headpack X.esp
GameFile67=Windows Glow.esp
GameFile68=entertainers.esp
WARNINGS
Not able to find Foot part in BC_shoes_common_1.
Not able to find Foot part in BC_shoes_common_5.
Not able to find Foot part in BC_shoes_extrav_2_f.
Not able to find Foot part in BC_shoes_common_5.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_5.
Not able to find Foot part in BC_shoes_common_1.
Model Load Error: Meshes\Soti\Soti-Dre-MH05.nif cannot load file in Meshes\Soti\Soti-Dre-MH05.nif.
Will use the default object Marker_Error.NIF.
Not able to find Foot part in BC_shoes_common_1.
Not able to find Foot part in BC_shoes_common_5.
Not able to find Foot part in BC_shoes_extrav_2_f.
Not able to find Foot part in BC_shoes_common_5.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_4.
Not able to find Foot part in BC_shoes_common_5.
Not able to find Foot part in BC_shoes_common_1.
Model Load Error: Meshes\Soti\Soti-Dre-MH05.nif cannot load file in Meshes\Soti\Soti-Dre-MH05.nif.
Will use the default object Marker_Error.NIF.
So apparently there's some problem with Better Clothes that I wasn't having before, and I'm not sure what the other error is from.
My save file just stopped working altogether, so I tried starting a new game and Jiub's head is missing. Guess there's something wrong there too.
Any help would be greatly appreciated, because this is getting frustrating.