Library, Workrooms, Bath, Crow's Nest, and Survey Room

The large hut like structure at the end of the ship contains the bath and library. At each side of this building is a large lamp. The library, within this structure, is a large circular room with several books. Except for Luffy, everyone has books stored in here. Circling together with the room's shape is a long bench for people to sit on. In the middle of the room is Nami's mapping desk and contains the Ship's Log and other things. The library, according to Nami, is the "Sunny's Brain".[4]

On top of the library, located in the attic like section of the building, is the bath. It contains a much larger bathtub than the previous ship. In Nami's words, taking a bath there while the ship gently rocks, has the feel of a high end spa.

On top of the foremast is the crow's nest. It is a dome shaped hut with several windows on the sides. It can be entered by climbing up the ropes surrounding the mast and then climbing a ladder up through a hole below the nest's metal carpeted floor. It contains some advanced telescopic equipment and a loud speaker microphone. The microphone is connected to a loud speaker located below the crow's nest. The crow's nest can also be used as a gym and contains exercising equipment such as dumb bells.

On top of the kitchen and dining hall of the Thousand Sunny is a little area that mimics the area on top of the Going Merry. This area can be accessed by going through a hatch that leads from the kitchen below, and gives access to the library. It also contains Nami's mikan trees, Robin's flower garden, the chimney for the kitchen below, and the office branch for Usopp's Factory.

Located below deck, to the aft of the Soldier Dock System, are the two rooms devoted to creating tools and other things, Usopp's Main Factory and Franky's Weapon Development Room. Both are complete with drawing boards and tools for the creation of blueprints and contraptions for the Straw Hats use in the near future. Both can be accessed by climbing down the stairs leading from the Energy Room.