Captain Commands are special abilities used by the Captains in the Minion Quest: The Search for Bowser and Bowser Jr.'s Journey modes of Mario & Luigi: Superstar Saga + Bowser's Minions and Mario & Luigi: Bowser's Inside Story + Bowser Jr.'s Journey respectively. They require CP to use, some of which is restored in between rounds. The amount of CP restored after each round is 1 if the captain has a maximum of 1-5 CP, 2 if the captain has a maximum of 6-8 CP, and 3 if the captain has a maximum of 9 or 10 CP. They can be used by either touching their icon on the touch screen or by pressing the . In Minion Quest: The Search for Bowser, any Captain Command can be assigned for any slot, although the bottom slot is fixed for that Captain's exclusive Captain Command. In Bowser Jr.'s Journey, the First Officer can also use their own Captain Commands, using up their own CP and are used by touching their icon on the touch screen or by pressing or . There are also lots of enemy captains between the two games who use Captain Commands as well.
A command that Bowser Jr. can use. Prevents an opponent from using a Special Skill, changing it to a regular attack. When used against a group, it decreases the number of enemies who can perform Special Skills. Deny will only work when an exclamation mark is over an enemy's head. It won't have any effect if it's used otherwise.
A command that Bowser Jr. can use. Calls his clown car in with food supplies to restore health to nearby allies. When the clown car is above the trooper you wish to heal, press to lower the snacks.
A command that Bowser Jr. can use when he's a Melee type. He'll march right up to the enemy Captain to begin a showdown. Bowser Jr. will take damage from any foes he encounters on the way. If a First Officer is there, they will act as a shield for their captain.
A command that Bowser Jr. can use when he's a Flying type. Summons a shy guy fleet to attack from the air! Damages allies and enemies alike. Stop the three cursors by pressing to determine where the attack will land. Try to aim for enemies and avoid allies.
A command that Bowser Jr. can use when he's a Ranged type. Volleys a huge bomb back and forth between the opposing squads. Use the +Control Pad to place the cursor where the big bomb lands and press in time to return the volley! Hit the bomb at a low point to return it quickly, or at a high point to return it slowly. Try waiting until the last second before you send it back. If "!" appears above one of your allies, you have an advantage! Try using a fast swing to send a bomb quickly for an extra powerful attack.
A skill that only Kamek (blue) can use. Stealthily appear behind the enemy captain for a sneak attack! If Kamek is discovered before attacking, his POW will decrease. Rumor has it he's more easily detected by troop types that he's weak against...
A command that Kamek can use. He'll talk sweetly to Bowser Jr. to restore some CP. While coddling, you can either Continue or Stop. Coddle too long, and Bowser Jr.'s mood will go south, diminishing the effects.
A command that Lemmy can use. It can deflect two enemy attacks, but doesn't work on Special Skills. Press right as your unit blocks an attack to counterattack.
A command that Lemmy can use. He'll climb atop a ball and charge forward. Press and Bowser Jr. will kick the ball that Lemmy is riding. Aim for a spot where the most enemies have gathered.
A command that Larry can use. Press repeatedly to have Bowser Jr. kick Larry at your enemies. Press again when Larry's shell hits an enemy and Larry will spin rapidly, dealing even more damage.
A command that Larry can use. Randomly summons up to two ally units to assist in battle for that stage only. Cannot be used if no allies have fallen. If you're lucky, perhaps an ally with a mushroom will appear to heal fallen comrades...
A command that Iggy can use. He will counter all opponents attacking Bowser Jr. The lower Bowser Jr.'s remaining HP is, the more damage this move will deal.
A skill that Wendy can use. Randomly causes a helpful effect, such as increasing the EXP received after the battle is won. Rumor has it there are also some secret effects that are rarely seen... You can retry once if you get an effect that you don't want.
A command that Wendy can use. Creates two clone allies to join the battle on your behalf. Cannot be used until at least one ally is defeated. Note that any active clones will disappear if Wendy is defeated.
A command that Ludwig can use. He will attempt to negotiate with a single foe. If successful, the enemy will leave the battle. Additionally, some enemies will actually join your side if the negotiation is successful. The weaker the enemy, the more likely Ludwig is to succeed.
Ludwig can use this command to stop an enemy's Special Skill and deal damage in return. This move is only effective against enemies with an "!" over their heads.
A command that Morton can use. He will act as Bowser Jr.'s shield for a limited time, taking enemy damage on his behalf. While Morton is on duty, Bowser Jr.'s support causes his stats to slightly increase. Morton cannot use any other commands while he's shielding. Press to release him from this role.
A command that Morton can use. The impact of a Thwomp thumping deals damage to all troopers on the ground. Press right before the Thwomp lands to move Morton and your allies out of the way and avoid receiving damage. Morton will jump toward an enemy at the same time that the Thwomp lands. Press right when he stomps to deal extra damage!
. In Minion Quest: The Search for Bowser, any Captain Command can be assigned for any slot, although the bottom slot is fixed for that Captain's exclusive Captain Command. In Bowser Jr.'s Journey, the First Officer can also use their own Captain Commands, using up their own CP and are used by touching their icon on the touch screen or by pressing 
or 
. There are also lots of enemy captains between the two games who use Captain Commands as well.
to lower the snacks.
to release him from this role.
