B9 Spaceplane (mostly) has a part that makes negative ground contact

[jcthemc]

KSP: 1.0.5 Windows x64

Problem: (mostly) B9 S2/S3 Spaceplane makes negative ground contact. Craft 1 can't take off at all - explodes as soon as you start accelerating. Craft 2 can take off, fly and land, but explodes when switched to from a save. Problem might stem from interaction with other mod.

Mods installed: (it's an idiotic amount, i know) All of these are the latest version available through CKAN, except for DMagic Orbital Science

Spoiler

[x] Science! (xScience 4.14)
Active Texture Management - X86 - Aggressive (ActiveTextureManagement-x86-Aggressive 5-0)
Adjustable Landing Gear (AdjustableLandingGear v1.2.0)
B9 Aerospace - HX Parts Pack (B9AerospaceHX 1:6.0.1)
B9 Aerospace Parts Pack (B9 1:6.0.1)
B9 Aerospace Procedural Parts - Fork (B9-PWings-Fork 2.1)
B9 Aerospace Props (B9-props 1:6.0.1)
B9 Animation Modules (B9AnimationModules v1.0.0)
B9 Part Switch (B9PartSwitch v1.0.1)
BahamutoD Animation Modules (BDAnimationModules v0.6.2)
BetterTimeWarp (BetterTimeWarp 2.2)
CapCom - Mission Control On The Go (CapCom 2.0)
Chatterer (Chatterer 0.9.7)
Coherent Contracts (CoherentContracts 1.03)
Community Resource Pack (CommunityResourcePack 0.4.9.0)
Community Tech Tree (CommunityTechTree 2.3)
Contract Configurator (ContractConfigurator 1.9.8)
Contract Pack: Advanced Progression (ContractConfigurator-AdvancedProgression 4.5.1)
Contract Pack: Bases and Stations (ContractConfigurator-KerbinSpaceStation 1:3.1.4)
Contract Pack: Clever Sats (ContractConfigurator-CleverSats 1.0)
Contract Pack: Rover Missions (ContractConfigurator-RoverMissionsRedux 0.1.3)
Contract Pack: SCANSat (ContractConfigurator-ContractPack-SCANsat 0.6.0)
Contract Pack: Unmanned Contracts (ContractConfigurator-UnmannedContracts 0.3.19)
Contract Parser (ContractParser 1.0)
Critical temperature gauge  (CriticalTemperatureGauge 1.0.5-a)
Crowd Sourced Science (CrowdSourcedScience v3.0.2)
Cryogenic Engines (CryoEngines 1:0.2.1)
Cryogenic Engines Extras: LFO Patch (CryoEngines-LFO 1:0.2.1)
Cryogenic Tanks (CryoTanks 0.1.1)
Deployable Engines Plugin (DeployableEngines 0.1.1)
DMagic Orbital Science (DMagicOrbitalScience 1.1)
Environmental Visual Enhancements (EnvironmentalVisualEnhancements 1:EVE-1.05-4)
Environmental Visual Enhancements - Config files (EnvironmentalVisualEnhancements-HR 1:EVE-1.05-4)
Extraplanetary Launchpads (ExtraPlanetaryLaunchpads 5.2.95)
Facility Reset for 64 bit (FacilityReset 1.0.3)
Field Experience (FieldExperience 1.0.2)
Filter Extensions - Default Configuration (FilterExtensionsDefaultConfig 2.4.1.3)
Filter Extensions - Plugin (FilterExtensions 2.4.1.3)
Filter Extensions - Stock Filter Rework (FilterExtensionsStockRework 2.4.1.3)
Final Frontier (FinalFrontier 0.9.8-1882)
Firespitter Core (FirespitterCore v7.1.5)
HeatControl (HeatControl 0.2.1)
HyperEdit (HyperEdit 1.4.2.0)
Interstellar Fuel Switch (InterstellarFuelSwitch 1.18)
Interstellar Fuel Switch (InterstellarFuelSwitch-Core 1.18)
Kerbal Alarm Clock (KerbalAlarmClock v3.5.0.0)
Kerbal Attachment System (KAS 0.5.5)
Kerbal Engineer Redux (KerbalEngineerRedux 1.0.19.4)
Kerbal Inventory System (KIS 1.2.5)
Kerbal Joint Reinforcement (KerbalJointReinforcement v3.1.4)
Kerbal Planetary Base Systems (KerbalPlanetaryBaseSystems v1.0.3)
Klockheed Martian General Plugin Functions - Gimbal module (KlockheedMartian-Gimbal 3.0.7.0)
Kopernicus Planetary System Modifier (Kopernicus 1:beta-06-3)
KSP Interstellar Extended (KSPInterstellarExtended 1.6.9)
Lithobrake Exploration Technologies (LithobrakeExplorationTechnologies 0.3.1)
Mark IV Spaceplane System (MarkIVSpaceplaneSystem 2.1.1)
MechJeb 2 (MechJeb2 2.5.6.0)
Mk2 Extended KSPI Integration (MK2KSPIIntegration 1:8.9.1.T)
Module Manager (ModuleManager 2.6.20)
Near Future Construction (NearFutureConstruction 0.5.5)
Near Future Electrical (NearFutureElectrical 0.6.2)
Near Future Electrical Core (NearFutureElectrical-Core 0.6.2)
Near Future IVA Props (NearFutureProps 0.4.4)
Near Future Propulsion (NearFuturePropulsion 0.6.1)
Near Future Solar (NearFutureSolar 0.5.5)
Near Future Solar Core (NearFutureSolar-Core 0.5.5)
Near Future Spacecraft Parts (NearFutureSpacecraft 0.4.4)
Outer Planets Mod (OuterPlanetsMod 1:1.9.2)
PlanetShine (PlanetShine 0.2.4.2)
PlanetShine - Default configuration (PlanetShine-Config-Default 0.2.4.2)
Portrait Stats (PortraitStats 7.0)
Progress Parser (ProgressParser 2.0)
QuickBrake (QuickBrake v1.10)
QuickGoTo (QuickGoTo v1.21)
QuickHide (QuickHide 1:v3.03)
QuickSearch (QuickSearch v1.21)
RasterPropMonitor (RasterPropMonitor v0.24.2.1)
RasterPropMonitor Core (RasterPropMonitor-Core v0.24.2.1)
RCS Build Aid (RCSBuildAid 0.7.7)
RLA Stockalike (RLA-Stockalike 13.3)
SCANsat (SCANsat v14.9)
scatterer (Scatterer 2:v0.0235)
Science - Full reward! (NMSG 2.0)
ShipManifest (ShipManifest 5.0.0.1)
SmokeScreen - Extended FX Plugin (SmokeScreen 2.6.13.0)
SpacetuxSA (SpacetuxSA 0.3.9.0)
SpaceY Heavy Lifters (SpaceY-Lifters 1.11.1)
StageRecovery (StageRecovery 1.6.3)
Stock Bug Fix Modules & StockPlus (StockBugFixPlus v1.0.5a.4)
Stock Fuel Switch (StockFuelSwitch 1.1)
Stockalike Station Parts Expansion (StationPartsExpansion 0.3.4)
Surface Mounted Lights (surfacelights 1.2.2)
TextureReplacer (TextureReplacer v2.4.12)
Throttle Controlled Avionics (ThrottleControlledAvionics 2.3.0.2)
Toolbar (Toolbar 1.7.10)
Trajectories (Trajectories v1.4.5)
Transfer Window Planner (TransferWindowPlanner v1.4.0.0)
TweakScale - Rescale Everything! (TweakScale v2.2.6)
USI Asteroid Recycling Technologies (USI-ART 1:0.7.2.0)
USI Core (USI-Core 0.1.8.0)
USI Exploration Pack (USI-EXP 0.4.5.0)
USI Freight Transport Technologies (USI-FTT 0.4.5.0)
USI Kolonization Core (USI-UKS-Shared 0.1.10.0)
USI Kolonization Systems (MKS/OKS) (UKS 1:0.33.9.0)
USI Survival Pack (USI-SRV 0.3.3.0)
USI Tools (USITools 0.6.3.0)
Ven's Stock Part Revamp (VenStockRevamp v1.9.1)
Waypoint Manager (WaypointManager 2.4.5)
 

Craft 1 Reproduction steps:

Craft 1: Load it up in SPH, then go to launch. Entire craft starts angling, nose up as soon as the vessel is spawned. Once you accelerate, it explodes.

Craft File: https://mega.nz/#!jEtTTbBA Output Log: https://mega.nz/#!mVlHECwD

I've tried to isolate the part from which the problem stems by taking apart the vessel piece by piece, but i haven't been able to identify which one it is.

Craft 2 Reproduction steps:

Craft 1: Launch from runway as normal, fly to orbit. Save game. Load save, the whole thing explodes. For the production of the log i used hyper edit to put the vessel into an orbit, and then saved/loaded.

Craft File: https://mega.nz/#!qNFwDYRI Output Log: https://mega.nz/#!nElRAY7D

 

Because of my heavily modded install i'm not expecting much - i'd settle for some troubleshooting tips helping me identify/isolate the problem.