Ten years after the Fourth Holy Grail War, a devastating clash between Masters and Servants, another war erupts. Shirou Emiya, whose father fought in the first battle, was leading a peaceful life with the warmhearted Sakura Matou. But when hidden forces begin to stir, Shirou resolves to fulfill his father’s dying wish, protect Sakura, and fight for the Holy Grail.

The Holy Grail War is a battle royale among seven magi who serve as Masters. Masters, through the use of the command seals they are given when they enter the war, command Heroic Spirits known as Servants to fight for them in battle. In the Fifth Holy Grail War, Rin Tohsaka is among the magi entering the competition. With her Servant, Archer, she hopes to obtain the ultimate prize—the Holy Grail, a magical artifact capable of granting its wielder any wish.

One of Rin's classmates, Shirou Emiya, accidentally enters the competition and ends up commanding a Servant of his own known as Saber. As they find themselves facing mutual enemies, Rin and Shirou decide to form a temporary alliance as they challenge their opponents in the Holy Grail War.