Sober now. Time to write some stuff.
At the lowest deck, I would clear up the hammocks on the right and left, as well as the various (presumably goblin) trash littering the floors, replacing both with more efficient bunk beds, with chests for belongings set next to the wall. A pair of lights would be placed on the ceiling to illuminate the area, while a small table for poker (with the goblins sitting at it obviously) would be added to the middle. Neatly packed into the corners and out-of-the-way spaces would be supplies for the longer journeys ahead.
On the stairs towards the deck above, I would place a huge barrel of beer, leading straight below to a second table.
Below-decks would get cleared of the various clutter. Boxes have no place next to firing positions. Lining the walls next to the firing positions would be small weapon posts, turning the two cannon areas into armories. The reactor chamber would be reinforced with a barred steel door as well as a pair of ceiling-mounted turrets that would feed off the ship's mana supply. The cautionary tales of raiders either damaging the motor, or setting off the self-destruct on the ship weren't forgotten.
On the front side, in the two corners under the stairs, I would place some sitting room. Under the stairs coming down from the upper deck of the ship, I'd place some supplies, placing removable netting to keep it in.
The middle of the area though, would keep a number of functions. Along the wall I would place various work stations(aesthetic, not really functional, though we could hope they would replace those inventory versions?
), while the middle of the chamber would serve as a command room, holding a large, round table with maps and charts strewn about.
The surface level of the ship would remain mostly unchanged, although I would add some covered space near the back, where you enter the scanner room. On the edges of the area there's unused space where I would add some sitting areas for the crew, and covered from above for comfort.
Inside the scanner room, I'd line the walls with bookshelves containing maps, charts, encyclopedias, and other tomes of interest.
And finally, along all decks, I would gladly add some npc characters who 'work there' even as passive, useless low-level mobs. Because, even with a full party, the ship feels dreadfully empty most of the time.
Estraele, League Nezeb