The gameplay in Taken Z is similar to other games in the series, but because it is on a portable system, the inputs were simplified or removed altogether. It utilizes a single-input system, with punch mapped to the A button, kick to the B button, and the left and right triggers used for tagging and throws, respectively. The game also included a side-step feature that made the game have a 3D feel similar to Mortal Kombat: Deadly Alliance, which was released later the same year.

Despite the simplification, Taken Z introduces new mechanics by implementing a wide range of "stun" variations such as "pop stuns", "crumple stuns" and right/left stuns.