This story focuses primarily on the heroine Rin Tohsaka. After her father’s death, Rin enters the Holy Grail War as the sole heir to the prestigious Tohsaka Household, with her servant Archer. But, she soon finds out that Shirou Emiya, a boy from her high school has gotten himself involved in the battles and unexpectedly saves him when he is fatally injured. Before long, Rin sets out to strike down the conspiracies surrounding the Holy Grail War along with Shirou and his summoned servant Saber. And so, the story begins to explore the truth behind Shirou’s powers and the nature behind his unyielding will to become a “hero.”
The movie starts off after the events of Episode 3, when Kisaragi had sunk. The Mikawa Fleet (Furutaka, Aoba, Kako, Kinugasa and Tenryuu) are in the middle of Night Battle. Choukai uses Searchlight and gets medium damage, but they win in the end. A New Fleet Girl gets "dropped", emerging from the sea. It is Kisaragi. Kisaragi is brought back to the temporary base in Solomon Islands, but she is suffering from PTSD and has amnesia, unable to remember anyone from back in the anime, excluding Mutsuki...
Gaimetal, a metallic mineral with high amounts of pure energy, was discovered 50,000 meters underground in 2047, and began mining worldwide. However, Gaist, which are metallic life forms whose bodies are fully embedded with Gaimetal emerged in 2055 and started to attack people. In 2064, Rekka, Hayato, Kurama, and Siren are among those known as Gear Gaist and they faced the battle with more than 100 varieties of creatures Gaist.
