Yuriko, the Tiger's Shadow

Commander ninjutsu {U}{B} ({U}{B}, Return an unblocked attacker you control to hand: Put this card onto the battlefield from your hand or the command zone tapped and attacking.)
Whenever a Ninja you control deals combat damage to a player, reveal the top card of your library and put that card into your hand. Each opponent loses life equal to that card's mana value.

Goro-Goro and Satoru

Whenever one or more creatures you control that entered this turn deal combat damage to a player, create a 5/5 red Dragon Spirit creature token with flying.
{1}{R}: Creatures you control gain haste until end of turn.

Heroes in a Half Shell

Vigilance, menace, trample, haste
Whenever one or more Mutants, Ninjas, and/or Turtles you control deal combat damage to a player, put a +1/+1 counter on each of those creatures and draw a card.

Isshin, Two Heavens as One

If a creature attacking causes a triggered ability of a permanent you control to trigger, that ability triggers an additional time.

Felix Five-Boots

Menace, ward {2}
If a creature you control dealing combat damage to a player causes a triggered ability of a permanent you control to trigger, that ability triggers an additional time.

Satoru Umezawa

Whenever you activate a ninjutsu ability, look at the top three cards of your library. Put one of them into your hand and the rest on the bottom of your library in any order. This ability triggers only once each turn.
Each creature card in your hand has ninjutsu {2}{U}{B}.

Donatello, the Brains

If one or more tokens would be created under your control, those tokens plus a Mutagen token are created instead.
Partner—Character select (You can have two commanders if both have this ability.)

Leonardo, the Balance

Whenever a token you control enters, you may put a +1/+1 counter on each creature you control. Do this only once each turn.
{W}{U}{B}{R}{G}: Creatures you control gain menace, trample, and lifelink until end of turn.
Partner—Character select (You can have two commanders if both have this ability.)

Vela the Night-Clad

Intimidate (This creature can't be blocked except by artifact creatures and/or creatures that share a color with it.)
Other creatures you control have intimidate.
Whenever Vela or another creature you control leaves the battlefield, each opponent loses 1 life.

Michelangelo, On the Scene

Trample (This creature can deal excess combat damage to the player it's attacking.)
Michelangelo enters with a +1/+1 counter on him for each land you control.
When Michelangelo dies, return this card to your hand.

Splinter, the Mentor

Menace
Whenever Splinter or another nontoken creature you control leaves the battlefield, create a Mutagen token.
Partner—Character select (You can have two commanders if both have this ability.)

Ink-Eyes, Servant of Oni

Ninjutsu {3}{B}{B} ({3}{B}{B}, Return an unblocked attacker you control to hand: Put this card onto the battlefield from your hand tapped and attacking.)
Whenever Ink-Eyes deals combat damage to a player, you may put target creature card from that player's graveyard onto the battlefield under your control.
{1}{B}: Regenerate Ink-Eyes.

Taeko, the Patient Avalanche

Taeko enters tapped.
Whenever another creature you control leaves the battlefield, if it didn't die, scry 1 and put a +1/+1 counter on Taeko.
Whenever Taeko attacks, you may pay {U/B}. When you do, target attacking creature can't be blocked this turn.

Higure, the Still Wind

Ninjutsu {2}{U}{U} ({2}{U}{U}, Return an unblocked attacker you control to hand: Put this card onto the battlefield from your hand tapped and attacking.)
Whenever Higure deals combat damage to a player, you may search your library for a Ninja card, reveal it, put it into your hand, then shuffle.
{2}: Target Ninja creature can't be blocked this turn.