The Charon's crew quarters are spread out over several decks. Deck 2 contains senior officer quarters, guest suites, two command suites, a Captain's suite, and two luxury diplomatic suites. Deck 3 contains more senior officer quarters and junior officer quarters. Deck 4 contains additional junior officer quarters and senior enlisted quarters, also comprising of several shared quarters. Deck 10 mainly consists of shared quarters and enlisted bunks, the marine barracks is also located on Deck 10.
Deck 2

- Quarters 201 (Captain's Quarters): Captain Khiy Kanryth
- Quarters 202: Commander Zivit Agron
- Quarters 203: Lieutenant Commander Alexander Canaris
Deck 3

- Quarters 301: Lieutenant Nitka Zar
- Quarters 302: Lieutenant Sorvo Bren-Parmenter
Deck 8

- Quarters 806: Cadet Chloe Mitchel
Deck 20
- Quarters 2001: Marine Colonel Aria Falcon