Johnny Quantum: Flight of the Aereothenon — Tom Pawlik

When 12-year-old John Quinn discovers he possesses strange powers, he learns his mother is an alien, part of a band of refugees, marooned on earth twenty years earlier. Ostracized by this alien community for being a “half-breed” and hunted by the CIA, John embarks on a harrowing space adventure to rescue his mother from a pair of brutish, alien bounty hunters.