| Trophy | How to unlock |
| Animal Friend (Gold) | Free all caged animals.
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| Avalanche (Bronze) | Defeat an enemy as a snowball.
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| Bear With Me (Bronze) | Defeat 10 enemies as the bear.
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| Big Guy (Bronze) | Defeat a large one.
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| Boardom (Bronze) | Defeat 10 enemies as the boar.
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| Botanist (Silver) | Collect one of each ingredient.
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| Bow Before Me (Bronze) | Defeat 50 enemies with the bow.
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| Completist (Gold) | Collect all Jizo statues.
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| Crash Landing (Silver) | Defeat Boss Screeching Owl.
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| Don't Blame it on the Sunshine (Bronze) | Bring sunshine to all the denizens of the graveyard.
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| Eat My Dust (Bronze) | Travel far in full gallop.
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| Found Futo (Bronze) | Find Futo.
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| Found Kunoichi (Bronze) | Find and free Kunoichi.
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| Found Shun (Bronze) | Find and free Shun.
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| Found Suzume (Bronze) | Find and free Suzume.
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| Found Tora (Bronze) | Find and free Tora.
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| Hard Little Ninja (Gold) | Complete game on hard difficulty.
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| Little Ninja (Gold) | Complete game on easy or medium difficulty.
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| Lost and Found (Silver) | Retrieve all five missing ninja.
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| No Conjurer of Cheap Tricks (Bronze) | Expend 1500 Ki using Kuji magic.
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| Now You See Me ... (Silver) | Defeat 100 enemies with stealth attack.
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| Off You Go (Bronze) | Completed basic training.
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| Off the Richter Scale (Bronze) | Defeat Boss Lumbering Fool.
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| Pied Piper (Bronze) | Incite 50 enemies to dance.
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| Platinum (Platinum) | Congratulations, you have unlocked all trophies.
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| Poker (Bronze) | Defeat 30 spearmen with the spear.
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| Restore Balance (Silver) | Defeat the Evil Samurai Warlord.
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| Sage of Philosophy (Silver) | Reach level cap.
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| Sightseeing (Bronze) | Visit all temples.
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| Silent Assas... Ninja (Gold) | Complete a level without being seen.
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| Smell You Later (Bronze) | Defeat Boss Windy Pants.
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| Smooth Sailing (Bronze) | Flawless Great River Canyon rafting.
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| Stop! Futo Time! (Silver) | Use Futo in combat on all levels.
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| Tengu Friend (Silver) | Complete all Wandering Tengu quests.
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| Tree Hugger (Bronze) | Shake 15 trees.
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| Tripped and Fell (Silver) | Defeat Boss Timid Swimmer.
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