The story is set after the end of Holy Road tournament finals of the first Inazuma Eleven GO anime, and Tenma returns to Raimon Junior High School. However, this is not the Raimon that Tenma remembers, and the members of the Raimon team no longer play soccer. 
Tenma realizes that this is a parallel world when Alpha, the captain and forward of the Protocol Omega team, appears before him. Alpha is part of a secret project in the future to wipe out soccer. 
To aid Tenma in his adventures, the Inazuma Caravan van seen in previous Inazuma Eleven anime has been modified into a flying time machine.
 
(Source: Anime News Network)

Matsukaze Tenma, a first year who loves soccer, has exceptional dribbling skills, but still has lots of room for improvement. The story starts with him entering Raimon Jr. High ten years after the first Football Frontier International, where Raimon has become famous for its soccer. However, an organization called Fifth Sector has taken control of soccer over the years, and the passion that Raimon once had for soccer is no longer there.

Inazuma Eleven Go Galaxy introduces Football Frontier International Vision 2 (FFIV2) with Shinsei Inazuma Japan as the protagonist team. The team includes previous characters such as Matsukaze Tenma, Shindou Takuto, and Tsurugi Kyousuke, as well as other new characters, all who are known to be talented in fields such as boxing, mathematics, and rhythmic gymnastics, but poor at soccer. 

The "Inazuma Legend Japan" that won the FFI one day and the "New Inazuma Eleven", that played through the Holy Road Tournament are having an exhibition match. But suddenly a  lot of little objects appear and start attacking the stadium. They were the little robots "LBX", a technology never saw before in that world. Tenma and his friends try to respond to the attack, but the little robots continue to appear one after another, until Yamano Ban appears to save them. The strongest soccer team and the strongest LBX army are now united, and a fierce battle is about to begin!

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