In Ninjamurai, the player assumes the role of Takezou Nishimura (Also known as The Ninjamurai), a young warrior who is the offspring of a union between a Female Ninja and a male Samurai. Rejected by both sides and looked down on as a kind of a mongrel breed, Takezou can be impulsive due to his age and often has a cocky attitude. He does however have a good heart and a desire to help others. He is the most skilled warrior in his mountain shrine where he was raised by a man named Oro Sensei. After many years of training, Takezou is tasked with going into the nearby city and doing some recon. When he gets to the city he realizes something is amiss. It is overrun with Black Armor Militia and Takezou sets about destroying the Black Armor presence in the city. He meets a Black Armor commander named Bedros Majima, who informs him that the Black Armor was responsible for the murder of his parents.