Ninja Master's is set in feudal Japan, where 10 unique ninjas compete against each other for their own reasons. The story revolves around the evil Nobunaga, who seeks to destroy Japan and bring chaos. Each ninja has a personal stake in defeating Nobunaga and restoring peace.
The gameplay in Ninja Master's follows typical fighting game mechanics. Players choose one of 10 ninjas, each with their unique abilities and weapons. The objective is to deplete the opponent's health bar through basic attacks, special moves (activated by specific control motions), and super moves (which rely on a power gauge). A key aspect of the gameplay is the ability to switch between using a weapon or fighting hand-to-hand. This choice does not significantly impact speed or attack power but alters the ninja's move set.