Berry is a girl living in the data-managed city of Tom Sawyer Island. Her hobby at the moment is trying to catch Phantom Zero, who's believed to be behind the cases of Love loss known as the Zero Phenomenon. One day, when she heads into town to get the broken Deco in one of her eyes fixed, Berry runs into a kid who seems like a ghost, due to being unable to be seen with Deco. Suspecting she may have finally found the Phantom, Berry begins her chase.

Berry and Hack are somehow able to escape from the Hyperverse that Phantom Zero pulled them into. But before long, Hack is apprehended by the customer center, who are investigating the Zero Phenomenon. The next day, Berry wakes up on the veranda of her apartment, and after trying to explain what happened, her friends point out to her that there is no evidence of Zero Phenomenon having occurred, much less of the kid she encountered. Not taking no for an answer, Berry decides to dig up proof behind the Zero Phenomenon.

Hack is being held at the customer center under suspicion of being Phantom Zero, where she's questioned about the crime of forcibly erasing Love. Meanwhile, Berry learns from the mysterious Finn about how he and his comrades are ghosts, citizens who live in the city despite not being registered. Finn is skeptical that a fellow ghost would have helped Berry, and obtains the data on Phantom Zero from the paper plane device of Hack's that Berry brought.

Four months have passed since the trial. Berry is now a ghost herself, and has joined the detective club alongside Hack and her friends. They're trying to capture Phantom Zero, and discover the truth behind the Zero Phenomenon. And that's when a certain client approaches them. This man wants them to find his missing daughter. But after a bit of digging, it turns out the missing girl isn't his daughter, but the female avatar that he had been using. Not only that, but the timing of the disappearance seems to have something to do with when Berry and Hack were caught in a Zero Phenomenon incident.

The Ghost Detective Club has a new case. The client is a professor that uses Deco overlays to create artificial animal that he has on display at his Neo Animal Museum. His self-proclaimed masterpiece, the Nue, has an appearance that doesn't match the listing on Decopeedia, and hires the detective club hoping to clear up the confusion. After getting a glimpse at the professor's Nue, it looks nothing like the cute creature whose picture is on the Decopedia page. Even so, the professor insists that his Nue is the accurate version.