35 years have passed since Lynn Minmay had brought peace between the Zentradi and the humans. Nekki Basara is a guitarist and a singer of the band Fire Bomber. Living in the flying colony City 7 , he composes and sings songs in the belief that music holds a greater power. However, an unknown alien race appeared and started laying siege upon City 7.
Corky, Angey, and Justin are playing hide and seek in the woods when a sudden storm appears and they come upon a house in the woods. They go inside and meet Professor Bumble and his Solar Ion Robot, SIR. They discover the house is a flying time machine and a sudden mishap send them into the past where they end up witnessing events from The Bible's New Testament as they keep trying to get home.
After a mysterious spaceship crashes on Earth a fleet of spaceships belonging to a race of aliens known as the Zentradi descend upon Earth sparking an intergalactic war.