The topmost level of The Behemoth is taken up by the shuttle bay. There is room for the ship's 30 ton skiff and complete facilities for repairing and refueling the craft. The bay doors are in the ceiling of the chamber, retracting to fore and aft for launch (at which time the bay is open to space). A small hatch at the forward end of the bay leads down to the main deck. There is an identical hatch above that leads to the exterior of the ship. If the shuttle is removed, this area can be used to haul an additional 200 register tons of cargo. When this is done the shuttle is either left at dock or magnetically clamped to the hull exterior (usually over the closed bay doors). There are storage rooms on either side of the aft end of the room -- used for maintenance equipment and EVA (Extra-Vehicular Activity) gear. Smaller lockers hold personal effects, flight suits, and various camping and survey gear -- including a 'couple' of sidearms and a hunting rifle.

The utility room is located at the aft end of the hangar bay and has stairs leading down to the main deck. The equipment in this room maintains and controls the life support systems (air, water, and heat) onboard the ship.