- Blefuscu Isle is named after one of the twin islands inhabited by tiny people in Gullivers Travels. The hotel itself is named after the Voynich Manuscript, an enigmatic book from the 15th century with indecipherable writing and illustrations of unknown plant species.
- In chapter 9 Taizou hallucinates his grandmother, who tells him to stay out of the sun and wear a straw hat.
- Several direct references to Dragon Ball, such as when Demona refuses Snark's request to bring her kills back to life.
- Chapter 43 shows a character wearing a belt from Kamen Rider
- One of the assassins in chapter 57 is a direct reference to Ichi from Sabu to Ichi Torimono Hikae. When Helena confronts him, she calls him Zatoichi.
- Kikaida is a visual one to Robot Keiji K
- Mashinkawa is just Mazinger Z in a suit.
- The whole idea of the "Three Mothers" (and particularly their names) is taken from the Thomas DeQuincey prose poem Levana and Our Ladies of Sorrow, which also inspired the works of Dario Argento, particularly Suspiria (1977), Inferno, and Mother of Tears.
- The inner cover art for the official English printing does this a couple of times. In the second volume, Helena and Berna are standing near a portrait of H. P. Lovecraft while a tentacle is poking out from under the door next to them. The third volume shows the grown-up Sleuth Brigade recreating the scene on the poster for Reservoir Dogs.
- When the Sleuth Brigade decides to track down and capture Snark, Professor invokes The Hunting of the Snark.
- The premise and eccentric tone is very similar to Flower, Sun and Rain. What makes it likely to be more than a coincidence are the number of other elements from FSR and other Suda games, such as a false eye, a masked wrestler, ranked assassins, etc.
Shout Out / The Voynich Hotel