After participating in the opening ceremony, Conan, Agasa, Ran, and the Detective Boys are enjoying the view from the observation deck of the 635-metre tall Bell Tree Tower. Suddenly, a bullet breaks through a window and strikes a man's chest, causing everyone to panic. Conan stays calm and uses the zoom function on his tracking glasses to follow the path of the bullet to its source. At the other end, Conan spies a black shadow. "But sniping from so far away is impossible, it can't be—!" Conan and Masumi Sera pursue the fleeing sniper on Masumi's motorcycle, but the chase takes a violent turn when the suspect attempts to blow up police patrol cars. Even the FBI get involved in the chase, but the culprit and the mysteries of the sniping end up vanishing into the ocean.
The investigation turns up a connection to the special United States Navy squadron, the Navy SEALS and other former US military officers working in Japan. However, the first sniping was just the beginning; as more people are shot, the citizens of Tokyo panic! What is the meaning of the bullet case and dice left behind? As his investigation progresses, Conan soon finds himself in the sniper's crosshairs, only to be saved by Masumi who intervenes and takes the bullet in his stead. And, in the background, Subaru Okiya begins to make his move.
