Anime and Manga
- Blue 6, Shang 9 — Blue Submarine No. 6
- Going Merry — One Piece
- Thousand Sunny — One Piece
- Thriller Bark — One Piece
- JDS Mirai — Zipang
- Over the Rainbow, (a renamed USS Harry S. Truman) — Neon Genesis Evangelion
- Pascal Magi — Tactical Roar
- Ghost Ship — Blue Submarine No. 6
- Super 99 — Submarine Super 99
- Thundersub — Thundersub
- Tempest Junior — Thundersub
- Tuatha de Danaan — Full Metal Panic!
- Yamato Takeru - super battleship, Kyokujitsu no Kantai.
- Takemikazuchi - aircraft carrier, Konpeki no Kantai
- I-3000 - supersubmarine, Konpeki no Kantai
- Yashiromaru — Case Closed: Strategy Above the Depths
- St. Aphrodite — Case Closed: Strategy Above the Depths
- Blue - Blue Drop
- Space Battleship Yamato - Space Battleship Yamato
- Super Dimension Fortress One (SDF-1) Macross - Robotech
- Illustria - A United Nations aircraft carrier from Macross Zero
- Asuka II (CVN-99) - A United Nations (formerly with Japan Maritime Self Defense Force) aircraft carrier from Macross Zero
Read more about this topic: Fictional Submarines
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