Merchants in Whiterun are permanently closed, and a few citizens are stuck in the scared stance-crouched with their hands over their heads.

[avree]

So, some of the Whiterun merchants are still open, but the alchemist and blacksmith are permanently locked. If I go in during the day, during normal business hours, the merchants are there, but they call the guards.

Additionally, two NPCs near the entrance are stuck in the fear position from when vampires attacked. Here's one of them: https://i.imgur.com/nLdSoRh.jpg [1]

I use Mod Organizer and SKSE. My mod list is as follows:

 

 

• DSR Output
• FNIS Output
• Bashed Patch
• Kace Auto Loot - MCM Configurable Autoloot
• The Dance of Death - A Killmove Mod
• D13 Faster GET UP STAND UP animation vanilla friendly
• Breezehome FullyUpgradable
• Moon and Star
• SOUTH DRAGON BRIDGE - Fight Against the Thalmor IV
• The Aldmeri Domain - Fight Against the Thalmor III
• Adal Matar the Lost Stronghold - Fight Against the Thalmor I
• Daggercross Alley
• Apple garden_Il giardino delle mele
• Laintardale
• NoMercy
• Realms
• AmberGuard
• Sea
• PitfighterDLC
• Pitfighter
• Extended Encounters
• Skygazer Moons - Masser and Secunda Ultra HD 4K Moon Textures
• SkyVoice - Voice Control for Skyrim
• Dragon Combat Overhaul
• Deadly Dragons package v6-3
• Stones of Barenziah Quest Markers
• Filled Pots
• Unread Books Glow
• Swift Potion Reborn
• Realistic Boat Bobbing
• No Snow Under The Roof
• Falskaar - Realistic Needs and Diseases Patch
• Glowing Ore Veins 300 Less Glow
• Faster Mining
• Collect water from wells - RND Compatible
• Cerwiden -SMART Healer- AI Configurable Companion
• Hoth
• Learn Alchemy From Recipes
• Helgen Reborn
• Vendor Sale Delay - GONE
• Immersive Patrols
• Trade and Barter
• Trade Routes
• Achieve That
• Ishs Respec Mod
• Enhanced Skyrim Factions - The Companions Guild
• Interesting NPCs
• Inconsequential NPCs
• Drinking Fountains of Skyrim
• Unique Border Gates
• Sky Haven Temple Merchants and More
• RealisticRoomRental-Enhanced
• Nightingale Hall Restored - Karliah as a Follower
• More Immersive Dawnguard Entrance
• High Hrothgar Overhaul
• Raven Rock Expanded
• Immersive Settlements
• Expanded Towns and Cities
• Understone Keep Fountains and Rubble
• Expanded Winterhold Destruction Ruins
• Dawn of Windhelm
• Dawn of Riften
• Better Docks
• Better City Entrances
• REGS
• Nernies City and Village Expansion
• Winter Is Coming - Cloaks
• Cloaks of Skyrim
• TTYM - Think To Yourself Messages
• TK Recoil
• TK HitStop
• Pumping Iron - Dynamic Muscle Growth
• Hunters Cabin of Riverwood
• Hunter Traps
• Harvesting animation
• Harvest Overhaul
• Bandolier - Bags and Pouches
• Hunterborn
• Realistic Needs and Diseases
• Frostfall - Hypothermia Camping Survival
• Extensible Follower Framework
• Non-Essential Children
• Thieves Guild Requirements - No Auto Quest Start Brynjolf
• The Choice is Yours - Fewer Forced Quests - Improved Dialogue Options
• Even Better Quest Objectives
• Wet and Cold - Ashes
• Wet and Cold
• When Vampires Attack
• Traps Make Noise - More Dangerous Traps
• The Paarthurnax Dilemma
• Skyrim -Community- Uncapper
• Skyrim Coin Replacer Redux
• SM Drop Lit Torches
• Run For Your Lives
• Oblivion Gates
• Move it Dammit for NPC Companions and Followers
• More Salt Please
• Lock Overhaul
• Gildergreen Regrown
• Follower Trap Safety
• Dynamic Fires
• Dual Wield Parrying
• Convenient Horses
• ClamsDropPearls
• Bring Out Your Dead
• Auto Unequip Ammo
• Ars Metallica - Smithing Enhancement
• Ultra Realistic Crossbow Shoot Sounds
• Ultra Realistic Bow Shoot Sounds
• Thundering shouts
• Smooth blades draw and sheath
• Realistic wolf howls
• Lower Sounding Thieves Guild Door
• Improved Combat Sounds
• Immersive Skyrim Thunder V6
• IHSS - Improved Horse Step Sounds
• Heart of the Beast - Werewolf Sound and Texture Overhaul
• Dragons Shout with Voice
• Audio Overhaul for Skyrim 2
• Better Weapon Swing Sounds
• Better Horse Pain Sounds
• Better Animal Footsteps
• Sweet Mother - the Night Mother Improvement
• Super Realistic Ore Textures
• Soul Gems Differ
• Skyrim Redesigned
• Silly Level of Detail - Wine Cellar -- SLOD WC
• Silly Level of Detail - Potions and Poisons -- SLOD PnP
• Septim HD
• Realistic Instruments - Flute Lute and Drum HQ
• Radiant and Unique Potions and Poisons HD
• Pilgrims Delight - High Hrothgar Shrine Retextures
• Not Really HD Keys
• N-R HD Display Case
• Mystery Modders Shrines HD
• Intricate Spider Webs
• HQ Paper
• HD Sacks Retexture
• HD Ore And Ingots
• HD Linens
• HD Baskets Retex
• Enhanced HD Dragon Bones
• Detailed Rugs
• Designs of the Nords
• Dark Brotherhood Tenets Restored
• Better Shadowmarks
• Better Bones
• The 418th Step
• Skyrim Performance PLUS
• Shooting Stars
• Smaller Ice Spike and Ice Spear
• Running with a bow 3rd person
• Rainbows
• NoMaaM Breathing Idles BBB
• No Spinning Death Animation
• Lightning during Thunder Storms
• Improved Weapon Impact EFFECTS Correct Metal
• Fores New Idles in Skyrim - FNIS
• Finer Dust
• Enhanced Blood Textures
• Enchantment Effect Replacer
• Dual Wield Blocking Animations
• Deadly Spell Impacts
• Dawnguard Rune Weapons FXS Replacer
• Burn Freeze Shock Effects
• Better Turn Animation only One pose
• Animated Weapon Enchants
• Ultimate HD Torch
• Shield_of_Ysgramor
• Not Really HD Mask of Clavicus Vile
• Nightingale Prime HD
• New Thinner Torch
• Improved closefaced helmets
• Greatsword Sheaths and Scabbards Redux
• Skyrim Weapon De-LARP-ification Project
• Elemental Staffs
• Closer Quivers and Longer Arrows
• Dawnguard Crossbow Explosive Bolts Visualized
• Better Circlets HQ V1o1
• Skyforge Hotfix
• Bonemold Hotfix
• aMidianBorn Book of Silence - Armors
• Natural Eyes
• Better Male Feet
• XCE - Dawnguard
• XCE - Xenius Character Enhancement``
• Dawnguard Rewritten - Arvak
• Superior Lore-Friendly Hair - HD textures
• PondFish and Salmon Replacer - texture
• new children
• More Realistic Hair
• Improved Foot Wraps for females
• Ice Wraith and Dragon Priest Retexture 4k - 2k
• HD Rabbits Plus
• Frost Atronach HD Retex
• Female Vampires Have Fangs
• Diverse Priests
• Cover Khajiits
• Brows
• Birds and Flocks
• Better Freckles
• Better Beast Races v2
• Bellyaches HD Dragon Replacer Pack
• Beards
• 83Willows 101BugsHD Butterfly Dragonfly Luna-Moth Torchbug
• Bellyaches Animal and Creature Pack
• Whiterun Trellis Redesigned and HQ
• Vivid Landscapes - Tundra Moss Revised
• Visible Windows
• Vibrant Auroras
• TreesHD_Skyrim_Variation
• Terrain Bump
• Telvanni reborn
• The Beauty of Skyrim - Dungeons
• Skyrim Improved Puddles - SIP
• Skyrim Distant Detail
• Realistic Water Two
• Re-Defined Dungeons WIP
• Realistic Mushrooms
• Real Ice
• Point The Way
• Moss Rocks - Dragonborn DLC Addon
• Moss Rocks
• Lanterns of Skyrim - All In One
• Improved Vanilla Mountains HD
• Hybrids HD Plants and Herbs Retexture
• HQ Snow Texture
• HiRes Legible Road Signs
• High Quality LODs
• Footprints
• Enhanced Night Skyrim
• Enhanced Distant Terrain
• HD Enhanced Terrain
• Dragon Glyphs HD - Fixed
• Chimneys
• aMidianBorn Solstheim Landscape
• aMidianBorn Caves and Mines
• Skyrim Flora Overhaul
• A Quality World Map - With Roads
• Enhanced Distant Terrain 2
• High Quality Food and Ingredients
• Tobes Highres Textures
• HD Misc
• SRO
• Serious HD Retexture Skyrim
• Static Mesh Improvement Mod
• SkyFalls * SkyMills
• Wyrmstooth
• Falskaar
• Ultimate HD Fire Effects
• Ruins Clutter Improved
• Jewels of the Nord - HD rings and necklaces
• Unknown Enchants
• Smaller Cursor
• SkyUI
• Skill Interface Re-Texture
• RaceMenu
• No Menu and Loading Smoke
• No Boring Sleep-Wait Menu
• Main Menu Spinning Skyrim Emblem
• Main Font Replacement
• Lore-Based Loading Screens
• Lockpicking interface retex
• KenMOD - Time on loading screen
• Immersive HUD - iHUD
• High Quality 3D Map
• Dungeon Quest Awareness
• Disease Descriptions for the Immersive Adventurer
• BLESSINGS - Altar Descriptions
• Better MessageBox Controls
• Better Dialogue Controls
• XP32 Maximum Skeleton -XPMS
• Realistic Ragdolls and Force
• Compatibility Patch - Guard Dialogue Overhaul
• Weapons and Armor Fixes - Remade with Dawnguard and Dragonborn support
• Unofficial High Resolution Patch
• Unofficial Dragonborn Patch
• Unofficial Hearthfire Patch
• Unofficial Dawnguard Patch
• Unofficial Skyrim Patch
• Skyrim Project Optimization
• SKSE -Elys- AltF4
• Guard Dialogue Overhaul
• Consistent Older People
• Fuz Ro Doh
• Fast travel timescale fix
• Dual Sheath Redux
• DCF plugin
• Distant Decal Fix
• Dead Body Collision Fix
• Brawl Bugs Patch - Plugins - Modder Resource
• Argonian Decapitation Fix
• Appropriately Attired Jarls
• Stable uGridsToLoad
• STEP - Skyrim Total Enhancement Project

 

 

Mod Organizer loadorder.txt

 

 

# This file was automatically generated by Mod Organizer.

Skyrim.esm

Update.esm

Unofficial Skyrim Patch.esp

Dawnguard.esm

Unofficial Dawnguard Patch.esp

HearthFires.esm

Unofficial Hearthfire Patch.esp

Dragonborn.esm

Unofficial Dragonborn Patch.esp

Falskaar.esm

Wyrmstooth.esp

Skyrim Project Optimization - Full Version.esm

ETaC - RESOURCES.esm

Lanterns Of Skyrim - All In One - Main.esm

WinterholdDestruction.esm

XFLMain.esm

REGS - Resources.esm

TradeRoutes.esp

HighResTexturePack01.esp

HighResTexturePack02.esp

HighResTexturePack03.esp

Brawl Bugs CE.esp

Unofficial High Resolution Patch.esp

Weapons & Armor Fixes_Remade.esp

Chesko_Frostfall.esp

Rainbows.esp

ADS.esp

AOS.esp

BWS.esp

DragonShoutVoice.esp

IHSS.esp

Improved Combat Sounds v2.2.esp

randomthunder.esp

mintylightningmod.esp

TradeBarter.esp

83Willows_101BUGS_V4_HighRes.esp

Ars Metallica.esp

Ars Metallica - Dawnguard.esp

Ars Metallica - Hearthfire.esp

Ars Metallica - Dragonborn.esp

Auto Unequip Ammo.esp

KaceAutoloot.esp

BirdsHFclean.esp

BLESSINGS - Altar Descriptions.esp

Bring Out Your Dead.esp

ClamsDropPearls.esp

Dead Body Collision.esp

Disease Descriptions.esp

DD_Dawnguard Additions.esp

DD_Dragonborn Additions.esp

Dual Sheath Redux.esp

DungeonQuestAwareness.esp

fFastTravelSpeedMult_4.esp

filled_pots.esp

Hunterborn.esp

Hunterborn_Dawnguard-Patch.esp

Hunterborn_Frostfall-Patch.esp

HunterTraps.esp

Immersive Battles.esp

Immersive Brigands.esp

Immersive Dawnguard.esp

Immersive Dragonborn.esp

Immersive Factions.esp

Immersive Mercenaries.esp

Immersive Patrols.esp

Immersive Travelers.esp

Immersive Werewolves.esp

Ish's Respec Mod.esp

More Salt Please.esp

More Salt Please - Dragonborn addon.esp

Moss Rocks.esp

Moss Rocks_DB.esp

ORM-Arvak.esp

PilgrimsDelight.esp

Point The Way.esp

RabbitsPlus.esp

Radiant and Unique Potions and Poisons v2.0 non glow.esp

ShootingStars.esp

Skyrim Flora Overhaul.esp

SkyrimImprovedPuddles-DG-HF-DB.esp

SMDropLitTorch.esp

SwiftPotion.esp

Traps Make Noise.esp

WetandCold.esp

WetandCold - Ashes.esp

Chesko_LoreBasedLoadingScreens.esp

Footprints.esp

Footprints - Ash.esp

NoxUE2.00.esp

RaceMenu.esp

RaceMenuPlugin.esp

SkyUI.esp

iHUD.esp

SkyVoice.esp

Cloaks.esp

1nivWICCloaks.esp

Elemental Staves.esp

Improved Closefaced Helmets_Legendary.esp

ExplosiveBoltsVisualized.esp

Dr_Bandolier.esp

HarvestOverhaul.esp

Lock Overhaul.esp

DeadlyDragons.esp

AdalMatar.esp

quest_andtherealmsofdaedra.esp

Apple garden.esp

BetterDGEntrance.esp

Breezehome_Fully_Upgradable.esp

Daggercross_Alley.esp

DragonmournInn.esp

Gildergreen Regrown.esp

high hrothgar overhaul.esp

Immersive Orc Strongholds.esp

Inconsequential NPCs.esp

DawnofRiften.esp

Nightingale Hall.esp

quest_nomercy.esp

quest_pitfighter.esp

quest_pitfighter_dlc01.esp

PumpingIron.esp

RiverwoodHuntingCabin.esp

Run For Your Lives.esp

When Vampires Attack.esp

quest_seaofghosts.esp

Sky Haven Temple M&M3.esp

SkyrimChimneysRW.esp

TheDomain.esp

The Paarthurnax Dilemma.esp

SkyrimCoinReplacerRedux.esp

AchieveThat.esp

Appropriately Attired Jarls Redux.esp

BetterQuestObjectives.esp

BetterQuestObjectives-Dawnguard.esp

BetterQuestObjectives-Hearthfire.esp

BetterQuestObjectives-PaarDilemmaPatch.esp

BlockSparkles.esp

Distant DetailHF.esp

DiversePriests.esp

dynamic fires.esp

ESFCompanions.esp

Guard Dialogue Overhaul.esp

SkyFalls + SkyMills + DG + DB + FS + WT.esp

WeaponsArmorFixes_GuardDialogueOverhaul_Patch.esp

LearnAlchemyFromRecipes.esp

SFO - Dragonborn.esp

Convenient Horses.esp

dD - Enhanced Blood Main.esp

dD-Dragonborn-Dawnguard-EBT Patch.esp

Soul Gems Differ - E.esp

TheChoiceIsYours.esp

TheChoiceIsYours_Dawnguard.esp

BetterQuestObjectives-TheChoiceIsYoursPatch.esp

Thieves Guild Requirements.esp

BetterQuestObjectives-ThievesGuildRequirementsPatch.esp

UnreadBooksGlow.esp

aMidianborn_Skyforge_Weapons.esp

REGS - Better Docks.esp

Drinking Fountains of Skyrim.esp

RBB Long and Row Boats - REGS.esp

RBB - Row Boats - Hearthfire Hotfix.esp

ETaC - Complete.esp

ETaC - Complete LoS Patch.esp

ExpandedWinterholdRuins.esp

Helgen Reborn.esp

RavenRockExpanded.esp

tos_amber_guard.esp

tos_laintardale_hf.esp

Understone Keep Repair.esp

REGS - Better City Entrances.esp

Chesko_Step418_SN.esp

Oblivion Gates v3 without Markers - Skyrim + Dawnguard DLC.esp

Oblivion Gates v3 - Skyrim + Dawnguard DLC.esp

UniqueBorderGates-All.esp

UniqueBorderGates-All-PointTheWay.esp

UniqueBorderGates-All-BetterDGEntrance.esp

Prometheus_No_snow_Under_the_roof.esp

Prometheus_NSUTR Falskaar Dock.esp

DawnofWindhelm.esp

RealisticRoomRental.esp

BetterQuestObjectives-PersidRRentalPatch.esp

REGS - Cities.esp

BetterQuestObjectives-AMBSkyforgePatch.esp

HitStop.esp

BFSEffects.esp

DeadlySpellImpacts.esp

Dual Wield Parrying_SKSE.esp

DragonCombatOverhaulDragonborn.esp

The Dance of Death - Ultimate Edition.esp

TKRecoil.esp

dD-No Spinning Death Animation.esp

HarvestingAnimation.esp

Beards.esp

Brows.esp

3DNPC.esp

MoonAndStar_MAS.esp

RRR_3DNPC-Patch.esp

RealisticNeedsandDiseases.esp

TradeRoutes-RNaD-Patch.esp

RND_Dawnguard-Patch.esp

RND_HearthFires-Patch.esp

RND_Dragonborn-Patch.esp

RND_DrinkingFountains-Patch.esp

RND_ETaC-Patch.esp

Hunterborn_RND-Patch.esp

RND_USKP-Patch.esp

FalskaarRNDHotfix.esp

HothFollower.esp

VendorSaleDelay-Gone.esp

XFLDialogue.esp

XFLPlugins.esp

BetterQuestObjectives-XFLPatch.esp

HothFollower UFO Patch.esp

SPTConsistentOlderPeople.esp

CerwidenCompanion.esp

moveitLWT.esp

NonEssentialChildren.esp

BetterQuestObjectives-NECPatch.esp

dD - Realistic Ragdoll Force - Realistic.esp

TTYM - Think to Yourself Messages.esp

TTYM - Frostfall Module.esp

Animated Weapon Enchants.esp

DawnguardRuneWeaponsFXSReplacer.esp

RealisticWaterTwo.esp

RealisticWaterTwo - Legendary.esp

BarenziahQuestMarkers.esp

ETaC - Complete 3DNPC Patch.esp

ETaC - Complete Fountains Patch.esp

WaterFromWellsDragonbornRND.esp

STEP Extended Patch.esp

Bashed Patch, 0.esp

Dual Sheath Redux Patch.esp

Extended Encounters.esp

Edited June 29, 2014 by avree

[Aiyen]

Please apply spoiler tags to your mod list. Look up "bbcode spoiler" on your favorite search engine and you will get how to do it. 

 

Also we need a load order as well as a mod list in order to provide any meaningful help with this issue! again in spoiler tags!

 

Thanks!  

[DocClox]

The only thing that I can think of off the top of my head that closes all the shops is the Siege of Whiterun. You didn't have a dragon or vampire attack as the Siege started by any chance? I can see how that might have glitched things.

 

That said, I've noticed that from time to time the merchants in w/run seem to stay closed all day for no apparent reason. Usually when it happens I think "must be sunday" and go do something else/shop somewhere else; they've always been open again when I returned a day or two later.

 

The matter of the cowering NPCs however - that does suggest something might have popped loose somewhere. Though it might still be fixable by spending a day or three out of the city.

[Nearox]

Sounds like some script(s) has/have run amok. Do need a load order though at the very least to identify a potential issue.

 

Also, looking at your mod choices, are you running your own custom build? It seems that you use at least STEP + REGS and then a set of your own mod choices (which is of course prefectly fine) but it would help if you mention the compilation base of your mod list.

[zombiecurse]

I've also encountered this problem. After a vampire attack, an orc (I think she was added by Inconsequential NPCs) got stuck doing the cower thing right in front of the door. She would stand up for a bit, then cower, then stand up . . . rinse and repeat. I don't think she was a vital NPC or anything (I'd never encountered her before). My solution was going to be to kill her in the middle of the night and drag her under the bridge, but I thought I'd mention it here in case you want to cross-reference my load order with OPs. I'll include my load order once I get home from work.

[DocClox]

you could try resurrecting the cowering actors. I mean without killing them first.

 

I think it's also possible to force an idle from the console, but I can never remember how to do that.

[avree]

Sounds like some script(s) has/have run amok. Do need a load order though at the very least to identify a potential issue.

 

Also, looking at your mod choices, are you running your own custom build? It seems that you use at least STEP + REGS and then a set of your own mod choices (which is of course prefectly fine) but it would help if you mention the compilation base of your mod list.

What's the best way to get my load order out of BOSS? I'm up for posting it. It's STEP + REGS + Explorers Pack + A few mods of my own.

 

I've tried using the save game cleaner to deleted orphaned scripts, as well as the 31-day reset and various console related commands. No dice.

[zombiecurse]

What's the best way to get my load order out of BOSS? I'm up for posting it. It's STEP + REGS + Explorers Pack + A few mods of my own.

 

I've tried using the save game cleaner to deleted orphaned scripts, as well as the 31-day reset and various console related commands. No dice.

If you're using MO, there should be a profile folder in there somewhere with a loadorder file in it.

[avree]

If you're using MO, there should be a profile folder in there somewhere with a loadorder file in it.

Okay, I've uploaded the loadorder.txt. Hopefully that's of use.

[avree]

I removed Run For Your Lives and When Vampires Attack, then used https://www.nexusmods.com/skyrim/mods/52363/? (save game cleaner) to remove the scripts from both mods. Whiterun is finally back to normal!  So, the problem certainly lies with those two. Any ideas?

[Aiyen]

Well since those two mods are designed to cause the behavior to begin with then it seems logical that removing them will fix it. I have never had any issues with those mods however.. and I regularly spawn dragon fights all over the place when bored.. even inside the major cities. 

 

It was never clear if you added any script based mods to your list after you started playing. Most weird script related behavior can be attributed to this... and in general if you have to resort to actually using save game cleaners then you most likely did something you should not have done in the first place. 

 

As a sort of rule then just decide which script related mods goes into a given profile/list before starting and after that then lock it. If you want to add more scripts then make a new profile/list and start a new game. Modding with scripts is not plug n play at all stages. The only types of mods that are plug and play at all points are meshes and textures.

 

Ofc. there are always exceptions and sometimes you can get away with just making a new save moving forward after you added a new scripted mod... however you should then never remove it. So always test out the functionality of a script mod on a new game before you add it to your main saves.

 

Hope that helps a little bit!

 

[Octopuss]

I once had a problem with two NPCs from Vilja where they got stuck in the cowering animation, presumably after some vampire attack.

This is what helped:

1) target the NPC

from console:

2) resetai

3) disable

4) enable

[avree]

Well since those two mods are designed to cause the behavior to begin with then it seems logical that removing them will fix it. I have never had any issues with those mods however.. and I regularly spawn dragon fights all over the place when bored.. even inside the major cities. 

 

It was never clear if you added any script based mods to your list after you started playing. Most weird script related behavior can be attributed to this... and in general if you have to resort to actually using save game cleaners then you most likely did something you should not have done in the first place. 

 

As a sort of rule then just decide which script related mods goes into a given profile/list before starting and after that then lock it. If you want to add more scripts then make a new profile/list and start a new game. Modding with scripts is not plug n play at all stages. The only types of mods that are plug and play at all points are meshes and textures.

 

Ofc. there are always exceptions and sometimes you can get away with just making a new save moving forward after you added a new scripted mod... however you should then never remove it. So always test out the functionality of a script mod on a new game before you add it to your main saves.

 

Hope that helps a little bit!

 

I haven't changed the modlist since I've started playing, with the exception of recently removing those two mods I mentioned. I decided what I wanted before I started the playthrough to ensure stability.

 

 

I once had a problem with two NPCs from Vilja where they got stuck in the cowering animation, presumably after some vampire attack.

This is what helped:

1) target the NPC

from console:

2) resetai

3) disable

4) enable

 

Thanks, but I've tried all of the above. Even recycleactor didn't work. I may try re-enabling the mods that created the problem today, and see if it just works.

Edited June 29, 2014 by avree

[Aiyen]

If everything else fails just try to go to an interior and wait for a month. That should reset the entire cell etc. 

[avree]

If everything else fails just try to go to an interior and wait for a month. That should reset the entire cell etc. 

I've actually already tried a 31-day reset. Did nothing!

[Vulgar1]

I have a similar issue, a whole mess of NPCs are stuck in the Bannered Mare. Since Im play as an Imperial I use Voice of the Emporer and three of them went out the doors. I think you can use the Harmony spell for the same affect. The rest are still crowded around the door including the carriage driver. I never had this problem with just Run For Your Lives and When Vampires Attack, it actually started after adding Touring Carriages. Are you by any chance using Touring Carriages?