Battle Dojo is playable by two people on the same console, one using the Gamepad and its screen, and the other using the Wii U Pro Controller, Classic Controller, or Classic Controller Pro and the TV screen.

Once a match begins, a column of light, marking a location, appears. Players must travel to this location and shoot the seven balloons that appear after 20 seconds when the light column appears. Each balloon is worth one point, and two when there is one minute left in the match. After all seven balloons are popped or are not popped after a certain amount of time, a new light column appears. The first player to 30 points or the player with the most points after three minutes wins the round.

Canned Specials make an appearance here and will either give you a status effect, Sub Weapon or Special Weapon. These can be found by breaking open crates found in various areas around each stage. Only five stages are currently playable in Battle Dojo: Arowana Mall, Blackbelly Skatepark, Saltspray Rig, Urchin Underpass, and Walleye Warehouse. There are only eight weapons available in Battle Dojo: Splattershot, Jet Squelcher, Splat Roller, Aerospray MG, Splat Charger, Classic Squiffer, Blaster, Rapid Blaster