Ninja Captains is a Nintendo DS action-adventure game in which players guide a group of inept cat-like ninjas on a quest to thwart a giant robot mouse wreaking havoc in New York. Players progress through a linear story mode, navigating various challenges across air, land, and sea, ultimately culminating in a final confrontation inside the robot to save the city.
Initially the games must be played through in linear fashion via the "story mode" in which the Ninja Captains are revealed to be some sort of inept crime fighters. Seeing a giant robot mouse trashing downtown New York on the television the kitty foursome follow a gizmo that's supposed to point them to where the trouble is, but it's malfunctioning so they take a taxi straight past the monster and board a plane instead. Thus begins a series of air, land and sea journeys that come full circle right back to New York for a final mini-game through the inside of the robot to save the day.