Tom, Bud, and Yo watch Mr. Swift test his new underwater vehicle, the Verne-1, which places seismometers on the ocean bottom, but when a sudden storm hits and they lose contact with the Verne-1, Tom must discover what happened.

When Tom and Sandy visit the Apogee, the world's first space hotel, Tom begins to notice strange happenings and when the billionaire guest of the hotel goes missing, Tom suspects foul play.

When Tom's father is kidnapped and it looks like it was an inside operation by the FBI, Tom vows to test the limits of science in order to find his father.