Refueled tanks show empty on engine

[Nicholiathan]

On two different ships that I've refueled from my Minmus station and then left in a parking orbit for an extended period of time this happened. When I went to execute their next maneuver their fuel tanks show as full but they have an engine that registers as empty and will not fire. I've listed my mods bellow & included screen shots of 2 ships that had this happen.

Alcubierre Stand alone, version: 0.2.1

Blizzy's Toolbar, version: 1.7.9

BoxSat, version A.02e

Cap Com, version: 1.1

Chatterer, version: 0.9.6

Coherent Contracts, version: 1.02

Community Resource Pack, version: 0.4.3

Community Tech Tree, version: 2.1

Connected Living Space, version: 1.1.3.1

Contract Configurator, version: 1.5.4

Contract Configurator-AdvancedProgression, version: 4.5

Contract Configurator-AnomalySurveyor, version 1.2.2

Contract Configurator-Contract Pack-SCANsat, version: v0.5.2.1

Contract Configurator-Field Research, version: 1.0.6

Contract Configurator-Grand Tours, version: 1:0.1.7

Contract Configurator-Initial Contracts, version: 1.0.4

Contract Configurator-Kerbin SpaceStation, version: 2.2

Contract Configurator-ScanSat Lite, version: 1.2.0

Contract Configurator-Tourism, version: 1.1.8

Contract Reward Modifier, version: 2.0

Crowd Sourced Science, version: v3.0

DMagic Orbital Science, version: 1.0.7

Docking Port Alignment Indicator, version: 6.2

Final Frontier, version: 0.8.6-1370

Firespitter Core, version: v7.1.4

Fusebox, version: 1.50

Heat Control, version: 0.1.2

Heat Control-Core, version: 0.1.2

Infernal Robotics, version: v0.21.2

Interstellar FuelSwitch-Core, version: 1.15

JSI Part Utilities, version: v0.3

Karbonite, version: 0.6.2

Karbonite Plus, version: 0.4.1

Kerbal Alarm Clock, version: v3.4.0.0

Kerbal Attachment System, version: 0.5.3

Kerbal Engineer Redux, version: 1.0.18.0

Kerbal Inventory System, version: 1.2.0

Kerbal Stats, version: 2.0.0

KW Rocketry, version: 2.7

MechJeb2, version: 2.5.3

Mobile Frame System, version: 0.3.2

Near Future Construction, version: 0.5.4

Near Future Electrical, version: 0.5.2

Near Future Electrical-Core, version: 0.5.2

Near Future Electrical-Decaying RTGs, version: 0.5.2

Near Future Props, version: 0.4.3

Near Future Propulsion, version: 0.5.3

Near Future Propulsion-Extras, version: 0.5.3

Near Future Propulsion-Low Thrust EP, version: 0.5.3

Near Future Solar, version: 0.5.21

Near Future Spacecraft, version: 0.4.3

Part Wizard, version: 1.2.1

Persistent Rotation, version: 0.5.3

Protractor, version: v2.5.1

Raster Prop Monitor, version: v0.21.2

Raster Prop Monitor-Core, version: v0.21.2

RCSBuildAid, version: 0.7.2

Reflection Plugin, version: 1.2

SAVE, version: 1.0.1-672

SCANsat, version: v14.1

Ship Manifest, version: 4.4.1.1

Spacetux Shared Assets, version: 0.3.6

Station Parts Expansion, version: 0.3.3

Stage Recovery, version: 1.5.7

Stock Bug Fix Modules, version: v1.0.4a.1

Stork DeliverySystem, version: v0.2.3

Surfacelights, version: 1.0

TextureReplacer, version: 2.4.7

UKS, version: 0.31.4

Universal Storage, version: 1.1.0.7

USI-Exploration Pack, version: 0.4.1

USI-Frieght Transport Technologies, version: 0.4.1

USI Tools, version: 0.4.1

Waypoint Manager, version: 2.4.1

[x]Science, version: 4.7