* AlternateCharacterInterpretation: The live action adaptation makes it seem more like Kindaichi is ObliviousToLove (at least in Miyuki's case) rather than just playing coy.
* CriticalResearchFailure: In "The Santa Slayings," Kindaichi says that the story about Perseus and Medusa tells of how Perseus make Medusa look into his shield, which was shiny enough to be useable as a mirror, in order to make her look at her own face and thus get [[TakenForGranite turned to stone.]] You don't need to be a scholar to know that this is as wrong as it possibly could be. The myth actually tells of how Perseus looked at the reflection of Medusa in his shield in order to be able to see her without being literally petrified by fear. That was the entire point of the shield, and Kindaichi's version is as wrong as claiming that Superman is strengthened by kryptonite.
* FridgeLogic: In the very first case, Hajime [[spoiler: should have been tipped off that someone brought a functional weapon to the theater when PhantomOfTheOpera needed no such thing. However, Hajime did admit that he didn't read the entire script the first time, he should have noticed that someone sneaked in a weapon.]]
* IdiotPlot: ''Smoke and Mirrors'' featured a murder case that would have been solved incredibly quickly in real life, due to the extreme stupidity of the murderer's way of handling it. To elaborate: [[spoiler: The murderer killed a student and hid her body in a wall. Then, he started spreading a ghost story about a student that got murdered in the room where the wall was, so that the students would avoid it. Thing is, if a story about a murdered student starts spreading at the same time as a student goes missing, obviously people will start wondering and subsequently see a connection!]]
** This is also acknowledge in the story itself, when Kindaichi notes that [[spoiler:had the culprit simply reported the bodies, he would have gotten a light sentence and been able to live the rest of his life without guilt. Instead, he ended up killing two other students and attempting to murder Miyuki just to cover everything up, and ensured he'd be in prison for life.]]
* MagnificentBastard: The Moriarty-esque recurring villain that matches wits with Kindaichi.
* NightmareFuel: Most cases with a supposedly "supernatural" culprit count. There are many of them. The live action "The Seven Mysteries of the School" ("Smoke and Mirrors" in the U.S. manga translation) case had a scene involving a science lab at night with a jar containing a human head that suddenly... ''opened its eyes''.
* ValuesDissonance: One case involved a tragedy behind [[spoiler: a secret marijuana farm.]] The portrayal of the MacGuffin in question might seem very excessive in American viewer's eyes but in Japan, [[spoiler: marijuana]] is portrayed as the worst thing ever.