I suspect this has more to do with mod incompatibilities than anything else, but I'm no modder. I'll include a debug. Could anyone tell me what this might be stemming from? Known mod issues, general wisdom, whatever...
In the meantime, I'll start sifting through the extensions and see if I can arrive at a resolution by elimination

Thanks in advance!
DEBUG:
01/10/2016 15:25:02 Start logging session
01/10/2016 15:25:03 Transcendence 1.6.3
01/10/2016 15:25:03 Graphics quality maximum: 47 ms; 4 cores.
01/10/2016 15:25:05 Loaded extension: Extensions\1050_SlaveFurnace\d912_Slaver\Slaver912.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1141_AutonOverwrite\d912_AutonOverwrite\AutonOverwrite.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1160_TradingPostMenu\d912_LibMods\TradeMenu.xml
01/10/2016 15:25:05 Loaded library: Extensions\1160_TradingPostMenu\d912_LibResources\Lib912Resources.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1176_FighterBays\d912_FighterBay\FighterBay.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1182_AmmoClips\d912_AmmoClip\AmmoClip.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1280_AvengeProtecttheCommonwealth\Avenge!\Avenge!.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1299_SlotlessReactors\d912_SlotlessReactor\SlotlessReactor.xml
01/10/2016 15:25:05 Loaded library: Extensions\1300_GopherCargoHold\d912_Gopher\Gopher.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1300_GopherCargoHold\d912_Gopher\GopherHold.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1338_TigersharkWeapons\d912_TigersharkGuns\TigersharkGuns.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1354_MoreTinkerRecipes\d912_MoreRecipes\Recipe912.xml
01/10/2016 15:25:05 Loaded extension: Extensions\1373_Wanted\d912_Wanted\Wanted.xml
01/10/2016 15:25:05 backColor not supported: TerrierLarge.jpg.
01/10/2016 15:25:05 backColor not supported: PantherLarge.jpg.
01/10/2016 15:25:05 backColor not supported: HummingbirdLarge.jpg.
01/10/2016 15:25:05 backColor not supported: AE531CWLarge.jpg.
01/10/2016 15:25:05 backColor not supported: MongooseLarge.jpg.
01/10/2016 15:25:05 backColor not supported: ArmorHUDTerrier.jpg.
01/10/2016 15:25:05 backColor not supported: ArmorTerrier.bmp.
01/10/2016 15:25:05 backColor not supported: ArmorHUDHummingbird.jpg.
01/10/2016 15:25:05 backColor not supported: ArmorHummingbird.bmp.
01/10/2016 15:25:05 backColor not supported: ArmorHUDMongoose.jpg.
01/10/2016 15:25:05 backColor not supported: ArmorMongoose.bmp.
01/10/2016 15:25:05 backColor not supported: ArmorHUDPanther.jpg.
01/10/2016 15:25:05 backColor not supported: ArmorPanther.bmp.
01/10/2016 15:25:05 backColor not supported: ArmorHUDAE531CW.jpg.
01/10/2016 15:25:05 backColor not supported: ArmorAE531CW.bmp.
01/10/2016 15:25:05 backColor not supported: AETerrierSpriteline.jpg.
01/10/2016 15:25:05 backColor not supported: AEHummingbirdSpriteline.jpg.
01/10/2016 15:25:05 backColor not supported: AEMongooseSpriteline.jpg.
01/10/2016 15:25:05 backColor not supported: AEPantherSpriteline.jpg.
01/10/2016 15:25:05 backColor not supported: AE531CWSpriteline.jpg.
01/10/2016 15:25:05 Loaded extension: Extensions\1376_AE-NewShipsBeta\AE - PlayerShips\AE-0001-Ships.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1392_DrakeTechnologiesAlpha\d912_DrakeTech\DrakeTech.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1403_TradeAssistant\Extensions\TradeAssistant\TradeAssistant.xml
01/10/2016 15:25:06 Loaded library: Extensions\1403_TradeAssistant\Libraries\LibTradeAssistant\LibTradeAssistant.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1421_WizardAuton\d912_WizardAuton\WizardAuton.xml
01/10/2016 15:25:06 backColor not supported: Resources/spaceframes.jpg.
01/10/2016 15:25:06 backColor not supported: Resources/Heligen_UIElements.jpg.
01/10/2016 15:25:06 Loaded extension: Extensions\1469_FighterLogistics\FighterLogistics\HGN_FB.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1477_KorolovUpdatedDefenses\CP_Korolov\CP_Antares.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1477_KorolovUpdatedDefenses\CP_Korolov\CP_Korolov.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1487_XenSystem\d912_Xen\Xen.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1489_QuantumnetShopping\QuantumnetConglomerate\QuantumnetCapital.xml
01/10/2016 15:25:06 backColor not supported: Resources\AqItems.jpg.
01/10/2016 15:25:06 backColor not supported: Resources\PEItems.jpg.
01/10/2016 15:25:06 backColor not supported: Resources\PEItems.jpg.
01/10/2016 15:25:06 backColor not supported: Resources\RpItems.jpg.
01/10/2016 15:25:06 Loaded library: Extensions\1489_QuantumnetShopping\QuantumnetConglomerate\QuantumnetLibrary.xml
01/10/2016 15:25:06 Loaded extension: Extensions\1495_Jaeger\jaeger.tdb
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUDShip_Sapphire.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUDShip_EI500.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUDShip_Wolfen.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUDShip.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round111.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round144.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round223.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round224.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round233.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round234.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round243.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round244.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round344.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round344b.bmp.
01/10/2016 15:25:06 backColor not supported: Resources\ArmorHUD_Round434.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round443.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round444.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round544.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round544b.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round634.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round644.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round644b.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Round844.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Wedge4.bmp.
01/10/2016 15:25:07 backColor not supported: Resources\ArmorHUD_Wedge6.bmp.
01/10/2016 15:25:07 Loaded library: Extensions\1498_PlayershipDronesv7Alpha\d912_PlayerShipDrones\PlayerShipDrones.xml
01/10/2016 15:25:07 Loaded extension: Extensions\1498_PlayershipDronesv7Alpha\d912_PlayerShipDrones\PSD_DnO1.xml
01/10/2016 15:25:07 Loaded extension: Extensions\1498_PlayershipDronesv7Alpha\d912_PSD7_MoreShips\PSD__Molotok1.xml
01/10/2016 15:25:07 Loaded extension: Extensions\1498_PlayershipDronesv7Alpha\d912_PSD7_MoreShips\PSD__MoreShips.xml
01/10/2016 15:25:07 Loaded extension: Extensions\1500_ShipsbyXephyr\Xephyr's Playerships\Xephyr's Playerships.xml
01/10/2016 15:25:07 Loaded extension: Extensions\800_OreScanningProgram\d912_OreScanROM\OreScanROM.xml
01/10/2016 15:25:07 Loaded extension: Extensions\876_ItemsPack912\d912_Items\Items912.xml
01/10/2016 15:25:07 Loaded extension: Extensions\898_ReliefPack912\d912_Relief\Relief912.xml
01/10/2016 15:25:07 Loaded extension: Extensions\907_AutonAssemblyHangar\d912_AssemblyHangar\AssemblyHangar.xml
01/10/2016 15:25:07 Loaded extension: Extensions\CabbageCorp (T v1.6.3 - CC v0.7.5.1)\ExtCabbageCorp.xml
01/10/2016 15:25:07 Loaded extension: Extensions\CabbageCorp (T v1.6.3 - CC v0.7.5.1)\ExtCabbageCorpShips.xml
01/10/2016 15:25:07 Loaded library: Extensions\CabbageCorp (T v1.6.3 - CC v0.7.5.1)\LibCabbageCorp.xml
01/10/2016 15:25:08 Loading news.
01/10/2016 15:25:10 All resources downloaded.
01/10/2016 15:27:25 Initializing adventure: Transcendence.tdb
01/10/2016 15:31:26 End logging session