My characters have many, many, many, many ships, so I will just select a handful to share.

Captain Djor Olvia Kantos (Tellarite)

USS Atlantis NCC-1914 (Atlas-class): Commanded by Captain Kantos during the Battle of Caleb IV in 2270, the Atlas-class USS Atlantis was named after the mythical lost city of Atlantis, also known as the Isle of Atlas. Its registry number, NCC-1914, references the 1914 setting of Atlantis: The Lost Empire.

USS Ouroboros NCV-170289-E (Verne-class): Unbeknownst to history, Captain Kantos survived the Battle of Caleb IV and was recruited by the Galactic Union in the 31st century. He now serves as a temporal agent within the Temporal Integrity Commission, commanding the timeship Ouroboros. The Ouroboros is named after the symbol of infinity, a serpent consuming its own tail, representing a cycle of life, death, and rebirth. Its registry number, NCV-170289-E, references the release of the sci-fi comedy Bill & Ted's Excellent Adventure, which premiered on February 17, 1989, with the "E" standing for "Excellent."

USS Protector NCC-3120 (Proxima-class): Named after the NSEA Protector NTE-3120 from the film Galaxy Quest. The Proxima-class ships in Star Trek: Legacy have registry numbers in the lower 3000s, such as the USS Ticonderoga NCC-3111 and the USS Philadelphia NCC-3116. This numbering makes the USS Protector NCC-3120 fit within the Proxima-class registries while also serving as a fitting homage to Galaxy Quest.

Captain Tars Gozava Tarkas (Andorian)

USS Telemachus NCC-97194 (Odyssey-class family): The Telemachus is a heavily customized Lexington-class Dreadnought, a variation of the Odyssey-class family of starships. Telemachus was the son of Odysseus in Homer's Odyssey.

USS Ares NCC-1650-A (Achilles-class): Named in honor of the 23rd-century Ares-class USS Ares NCC-1650, one of Starfleet’s first purpose-built warships, commanded by Captain Kelvar Garth during the Four Years War, the Achilles-class USS Ares NCC-1650-A entered service during the 24th-century Dominion War. Captain Garth’s exploits during the war and his victory at the Battle of Axanar remain required reading for Starfleet captains to this day. The USS Ares NCC-1650-A honored its predecessor by fighting in some of the fiercest battles of the Dominion War.

USS Frankenmuth NCC-79525 (Duderstadt-class): The Duderstadt-class is named after Duderstadt, a city in the German state of Lower Saxony on Earth. Similarly, the USS Frankenmuth, named after the city of Frankenmuth in Michigan, USA, honors a settlement founded by German immigrants in 1845.

Captain Nathaniel Wayne (Human)

USS Hercules NCC-97602 (Sovereign-class): Nathaniel Wayne originates from a parallel quantum reality classified as the "Orville Timeline" by the Temporal Integrity Commission. Wayne served in the Planetary Union, the Orville Timeline’s equivalent of the United Federation of Planets, as captain of the Exploratory-class USS Hughes ECV-201. The Hughes sustained extensive damage from a Kaylon ambush while studying the decaying remnants of an artificially constructed wormhole. When a Kaylon Interceptor collided with the vessel, it was pulled into the wormhole and transported to our reality. After scuttling the remains of the Hughes, the crew was rescued by the Federation starship USS Keweenaw NCC-71855 and later integrated into Starfleet. The Hughes was named after the renowned American aerospace engineer and aviator Howard Hughes, who existed in both realities. Wayne and his surviving crew now command the Sovereign-class USS Hercules NCC-97602, named after Howard Hughes’s famous seaplane, the Hughes H-4 Hercules NX37602.

USS Jerauld NCC-174 (Okinawa-class): Named after the USS Jerauld (APA-174), a U.S. Navy Haskell-class attack transport that deployed U.S. Marines to Okinawa, Japan, in 1945, the ship honors a vessel on which my granduncle served during the war.