But anyways, here's my load order. I think its more a general problem rather than directly mod related but I might as well post it still. The mods I installed when this started happening are Lithian's Nature of the Beast, WHOOSH, Tales from Elsweyr Anequia, Daedric Shrine Ruins, Vampire Hunting, and Never Die.
Active Mod Files:00 Oblivion.esm01 All Natural Base.esm [Version 0.9.9.5]02 Francesco's Leveled Creatures-Items Mod.esm03 Francesco's Optional New Items Add-On.esm04 Cobl Main.esm [Version 1.72]05 Oscuro's_Oblivion_Overhaul.esm [Version 1.34]06 Mart's Monster Mod.esm [Version 3.7b3p3]07 Enhanced Daedric Invasion.esm08 TamrielTravellers.esm [Version 1.39c]09 FCOM_Convergence.esm [Version 0.9.9MB3]0A Armamentarium.esm [Version 1.35]0B Artifacts.esm [Version 1.1]0C Better Cities Resources.esm0D CM Partners.esm0E Lattamerv3.esm0F HorseCombatMaster.esm10 Unofficial Oblivion Patch.esp [Version 3.2.7]11 Oblivion Citadel Door Fix.esp12 DLCShiveringIsles.esp13 Unofficial Shivering Isles Patch.esp [Version 1.4.0]++ Shivering OOO.esp14 Better Cities .esp15 Francesco's Optional Chance of Stronger Bosses.esp16 Francesco's Optional Chance of Stronger Enemies.esp17 Francesco's Optional Chance of More Enemies.esp18 Francesco's Optional Leveled Guards.esp++ FCOM_Francescos.esp [Version 0.9.9]++ FCOM_FrancescosItemsAddOn.esp [Version 0.9.9]19 FCOM_FrancescosNamedBosses.esp [Version 0.9.9]1A Fran Armor Add-on.esp1B Fran_Lv30Item_Maltz.esp1C LoadingScreens.esp1D All Natural - Real Lights.esp [Version 0.9.9.5]1E All Natural.esp [Version 0.9.9.5]1F All Natural - SI.esp [Version 0.9.9.5]20 Enhanced Water v2.0 HD.esp++ Enhanced Water v2.0 HD - SI Addon.esp [Version 0.1]21 WindowLightingSystem.esp++ BrighterTorches_v1.2.esp22 Display Stats.esp [Version 1.2]++ Item interchange - Extraction.esp [Version 0.78]23 Never die.esp24 Portable Campsite.esp25 Willful Resistance.esp [Version 4.0]26 Living Economy.esp27 Living Economy - Items.esp28 Enhanced Economy.esp [Version 4.2.1]29 Map Marker Overhaul.esp [Version 3.5.2]2A Map Marker Overhaul - SI additions.esp [Version 3.5]2B DLCHorseArmor.esp2C DLCHorseArmor - Unofficial Patch.esp [Version 1.0.5]2D DLCOrrery.esp2E DLCOrrery - Unofficial Patch.esp [Version 1.0.3]2F DLCVileLair.esp30 DLCVileLair - Unofficial Patch.esp [Version 1.0.5]31 DLCMehrunesRazor.esp32 DLCMehrunesRazor - Unofficial Patch.esp [Version 1.0.4]33 DLCSpellTomes.esp++ DLCSpellTomes - Unofficial Patch.esp [Version 1.0.1]++ MaleBodyReplacerV4.esp** EVE_StockEquipmentReplacer.esp34 Dreadweave Complete_Light.esp35 EY_Vampirehunter.esp36 Lich King's Helm v1_0.esp37 New Frostmourne Sword by Jojjo v1_0.esp38 PTArtifacts.esp39 tda_Armoury.esp3A Warglaive - EV.esp3B XiaNewAmuletsV1.esp** Armamentium female.esp3C AL_AuroranBattleSteed.esp3D DLCThievesDen.esp3E DLCThievesDen - Unofficial Patch.esp [Version 1.0.5]3F DLCThievesDen - Unofficial Patch - SSSB.esp [Version 1.0.4]40 KDCircletsOOOOptimized - NPC Equip.esp [Version 1.2]++ FCOM_KDCircletsOOOOptimizedNPCEquip.esp [Version 0.9.9]41 Slof's Oblivion Robe Trader.esp42 Cobl Glue.esp [Version 1.72]43 Cobl Si.esp [Version 1.63]44 Bob's Armory Oblivion.esp45 FCOM_BobsArmory.esp [Version 0.9.9]46 Loth's Blunt Weapons for Npcs.esp++ FCOM_LothsBluntWeapons.esp [Version 0.9.9]47 Oblivion WarCry EV.esp48 FCOM_WarCry.esp [Version 0.9.9MB3]49 Oscuro's_Oblivion_Overhaul.esp [Version 1.33]4A OOO-Map_Markers_Stock.esp [Version 1.33]++ OOO-DLT_Remover.esp [Version 1.33]++ OOO_XiaNewAmulets Addon.esp [Version 0.5]** OMOBS.esp [Version 1.0]** OMOBS_SI.esp [Version 1.0]++ ArmamentariumLLVendors.esp [Version 1.35]4B ArmamentariumArtifacts.esp [Version 1.35]4C Mart's Monster Mod - Additional Enemy NPC Vars.esp [Version 3.7b3p3]4D FCOM_Convergence.esp [Version 0.9.9Mb3]4E FCOM_RealSwords.esp [Version 0.9.9]4F Mart's Monster Mod - More Wilderness Life.esp [Version 3.7b3p3]++ Mart's Monster Mod - More Passive Wildlife.esp [Version 3.7b3p3]++ FCOM_SaferRoads.esp [Version 0.9.9]++ FCOM_LessRats.esp [Version 0.9.9]++ Mart's Monster Mod - No Pests.esp [Version 3.7b3p3]++ Mart's Monster Mod - No Swarms.esp [Version 3.7b3p3]50 Mart's Monster Mod - Extra Wounding.esp [Version 3.7b3p3]++ Mart's Monster Mod - Looting NPCs & Creatures.esp [Version 3.7b3p3]51 Mart's Monster Mod - No Carrion Rats.esp [Version 3.7b3p3]++ Mart's Monster Mod - No Bone Loot.esp [Version 3.7b3p3]52 Mart's Monster Mod - Zombies for Body Meshes.esp [Version 3.7b3p3]53 Mart's Monster Mod - Dungeons of MMM.esp [Version 3.7b3p3]54 Mart's Monster Mod - Farm Animals.esp [Version 3.7b3p3]55 Mart's Monster Mod - Diverse WaterLife.esp [Version 3.7b3p3f]++ Mart's Monster Mod - Slof Horses Complete.esp [Version 3.7b3p3]++ Mart's Monster Mod - Diverse Runeskulls Loot.esp [Version 3.7b3p3]++ TamrielTravellerAdvscript.esp [Version 1.39c]56 TamrielTravellers4OOO.esp [Version 1.39c]57 TamrielTravellersItemsCobl.esp [Version 1.39c]58 ShiveringIsleTravellers.esp [Version 1.39c]++ ShiveringIsleTravellersFriendlyFactions4MMM.esp [Version 1.39c]++ FCOM_TamrielTravelers.esp [Version 0.9.9]++ FCOM_DiverseGuardUnity.esp [Version 0.9.9]++ FCOM_BobsGuardUnity.esp [Version 0.9.9]** FCOM_Archery.esp [Version 0.9.9]** FCOM_FriendlierFactions.esp [Version 0.9.9]++ Mart's Monster Mod - Shivering Isles.esp [Version 3.7b3p3]++ ArmamentariumLL4OOO.esp [Version 2.01]++ ArmamentariumLLMagicOOO.esp [Version 1.35]** Fransfemale.esp59 SSEE-OOO.esp** EVE_StockEquipmentReplacer4FCOM.esp** EVE_StockEquipmentReplacer for OOO.esp** EVE_StockEquipmentReplacer4MMM.esp5A Artifacts.esp [Version 1.1]** ArtifactsFemaleArmor.esp5B BravilSeaDomes.esp5C BrotherhoodRenewed.esp [Version 1.0.3]5D Kragenir's Death Quest.esp5E KDQ - Rural Line Additions.esp5F Vampire Hunting - Order Of The Virtuous Blood.esp60 Return Of Shadows.esp [Version 1.06b]61 Side's Sailing Ships.esp++ Side's Sailing Ships (COBL).esp62 24HrArenaAliveLow.esp63 DLCFrostcrag.esp64 DLCFrostcrag - Unofficial Patch.esp [Version 1.0.4]65 Knights.esp66 Knights - Unofficial Patch.esp [Version 1.0.9]** EVE_KnightsoftheNine.esp67 Weye.esp68 Mighty Umbra.esp69 MannimarcoRevisited.esp6A MannimarcoRevisitedOOO.esp [Version 0.1]6B MannimarcoWardrobeChest.esp++ FCOM_MightyUmbra.esp [Version 0.9.9]++ FCOM_Knights.esp [Version 0.9.9Mb3]++ FCOM_SlofsRobeTrader.esp [Version 0.9.9]6C Enhanced Daedric Invasion.esp++ FCOM_EnhancedDaedricInvasion.esp [Version 0.9.9]6D Hammerfell_HighRock.esp6E Blackmarsh.esp6F Valenwood.esp70 Summerset.esp71 ElsweyrAnequina.esp72 Tales from Elsweyr Anequina.esp73 Valenwood_Anequina_Patch.esp74 Daedric Shrine Ruins.esp75 xuldarkforest.esp [Version 1.0.5]76 xulStendarrValley.esp [Version 1.2.2]77 xulTheHeath.esp78 MMMMWL-TheHeath patch.esp79 XulEntiusGorge.esp7A xulFallenleafEverglade.esp [Version 1.3.1]7B Anequina-Fallenleaf-Patch.esp7C xulColovianHighlands_EV.esp [Version 1.2.1]7D xulChorrolHinterland.esp [Version 1.2.2]7E xulBeachesOfCyrodiilLostCoast.esp [Version 1.6.4]7F xulBravilBarrowfields.esp [Version 1.3.2]80 Tales Elsweyr Anq Bravil Barrowfields Patch.esp81 xulLushWoodlands.esp [Version 1.3]82 xulAncientYews.esp [Version 1.4.2]83 xulAncientRedwoods.esp [Version 1.6]84 xulCloudtopMountains.esp [Version 1.0.3]85 xulArriusCreek.esp [Version 1.1.3]86 xulPatch_AY_AC.esp [Version 1.1]87 xulRollingHills_EV_withoutWheat.esp [Version 1.3.2]88 MMMMWL-RollingHills patch.esp89 xulPantherRiver.esp8A xulRiverEthe.esp [Version 1.0.2]8B xulBrenaRiverRavine.esp [Version 1.0.2]8C xulImperialIsle.esp [Version 1.6.5]8D xulBlackwoodForest.esp8E xulCheydinhalFalls.esp [Version 1.0.1]8F xulAspenWood.esp [Version 1.0.1]90 xulSkingradOutskirts.esp++ FCOM_UnofficialFranArmorAddon.esp [Version 0.9.9]91 Harvest [Flora].esp [Version 3.0.0]++ Harvest [Flora] - Shivering Isles.esp [Version 3.0.0]++ Harvest [Flora] - DLCVileLair.esp [Version 3.0.0]92 Harvest [Flora] - DLCFrostcrag.esp [Version 3.0.0]93 Automatic Difficulty Increaser.esp94 Birthsigns Expanded.esp [Version 3.11.]95 WHOOSH.esp96 EVE_ShiveringIslesEasterEggs.esp97 Dungeon Actors Have Torches 1.6 DT.esp98 Exterior Actors Have Torches 1.3 DT.esp99 SleepRestAnyTime.esp9A P1DkeyChain.esp [Version 5.00]9B Alternative Start by Robert Evrae.esp9C MQSDone.esp9D LTDVampireOverhaul.esp9E SpreadingVampirism.esp9F LithiansNatureOfTheBeastModBeta.espA0 ConduitMagic.espA1 Madgod Powers.espA2 SpellSinger.espA3 SupremeMagicka.esp [Version 0.90]A4 SM_ShiveringIsles.esp [Version 0.86]++ SM_DLCSpellTome.esp [Version 0.80]++ SM_OOO.esp [Version 0.89]++ SM_MMM.esp [Version 0.89]++ SM_COBL.espA5 SM_EnchantStaff.esp [Version 0.80]++ SM_UnlockSpells.esp [Version 0.70]++ SM_NoSpellLights.esp [Version 0.70]++ SM_Scrolls.esp [Version 0.84]A6 SM_SigilStone.esp [Version 0.83]A7 Enchantment Enhanced.espA8 attack and hide easier v2.1.espA9 Deadlier Sneaking 1.1.espAA RenGuardOverhaul.espAB TRN One of the Gang.espAC DeadlyReflex 5 - Combat Moves.esp++ SM_DeadlyReflex.esp [Version 0.86]AD CLS-OldFriends-OBSE.espAE Oblivion XP.esp [Version 4.1.5]++ DMC Stylish - Specialanims.espAF Let There Be Darkness - Cyrodiil + SI.espB0 Let There Be Darkness - Knights.espB1 Let There Be Darkness - Mehrunes Razor.esp++ Item interchange - Placement for FCOM.esp [Version 0.78]++ Item interchange - Placement for Frostcrag.esp [Version 0.78]++ Item interchange - Option, Ingredients in Bulk.esp [Version 0.78]++ EVE_KhajiitFix.espB2 Moonshadow Elves - Sc.espB3 Capucines Character Expansion - No NPC Change.espB4 LattamerV3_P-rrtyCure_Hair_Module.espB5 Ancient Elven Sorcerer - EV.espB6 CM Partners.espB7 CM Partners NPC.espB8 CM Partners More NPCs NE.espB9 CM Partners Extra NPCs.espBA Better Cities - Full City Defences.espBB Better Cities Full.espBC BCBravilFULL-Barrowfields patch.espBD Better Cities - Unique Landscape Barrowfields.espBE BCChorrol-ChorrolHinterland fix.espBF Better Cities - Unique Landscape Chorrol Hinterland.espC0 BCCheydinhalFULL-CheydinhalFalls patch.espC1 Better Cities - Unique Landscape Cheydinhal Falls.espC2 BCSkingrad-SkingradOutskirts patch.espC3 Better Cities - Unique Landscape Skingrad Outskirts.espC4 Better Imperial City.espC5 Better Imperial City FPS Patch.espC6 Better Cities - COBL.esp [Version 2]C7 Better Cities Full FPS Patch.esp++ Francesco's day lenght rescale 1-16.esp++ X-Ray Detect.esp** Enhanced Economy - Soulgems.esp [Version 4.2.1]** All Natural - Indoor Weather Filter For Mods.esp [Version 0.9.9.5]C8 Bashed Patch, 0.espC9 FormID Finder4.espCA Streamline 3.1.espCB ZOMBIES! - 28 days and a bit V2.espCC Grey Elf Race.esp++ PW_MorrowindFog.espCD Celestiel - EV.espCE All Spells Avalible for Enchanting and Spell Making.espCF Brena River Ravine Daedric Shrine Ruins Patch.espD0 Alleffectonespell.esp