The Chimaera of Skylla's name is, aside from a mythological one, also a word play of Camera Obscura which was originally found in Yūichi Sasamoto's long time friend AsariYoshitoo's Manga Science series volume 7, the Fairy of Camera, Camera Of Scylla.
The Admiral Hornblower is named after the fictional naval officer Horatio Hornblower, protagonist of a series of novels by C.S. Forester.
The title of the short story included in the Mouretsu Pirates Perfect Guide Book in the Mouretsu Pirates Blu-Ray Box, On Her Majesty's Space Pirates(王女殿下の宇宙海賊, Ōjodenka no Uchū Kaizoku, Her Royal Highness The Princess's Space Pirate), is a reference to On Her Majesty's Secret Service (Japanese title: 女王陛下の007, Joōheika no 007, Her Majesty The Queen's 007).
During Grunhilde's explanation about Flint, she wears a deerstalker hat and mantle, an outfit commonly associated with the famous detective Sherlock Holmes.
In Chapter 90 of Genshiken Nidaime, several members of the cast cosplay as characters from the series (Ohno as Chiaki, Angela as Misa, Sue as Gruier, Yoshitake as Coorie, Yajima as Luca and Ogiue as Quartz). In Chapter 91, Hato joins them as Marika.