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- In some Brave Series:
- Brave Police J-Decker — we have Shadowmaru, a six-forms giant robot with Ninja skills.
- The Brave of Gold: Goldran — Sora-Kage a golden bird mecha with ninja abilites in robot form
- Brave Command Dagwon — Dag-Shadow, a triple-changer mecha, have a Jet and Dragon-like form.
- GaoGaiGar: Volfogg and the is a police car ninja and the combine form Big Volfogg have the same abilities.
- In the Gundam franchise:
- Ghost in the Shell: Aside from their heavy usage of firearms, the members of Section 9 are this to a tee. Cybernetically enhanced bodies, experts at infiltration, hacking, and hand-to-hand combat, and often finding themselves having to use these strengths against physically more powerful enemies.
- The initial arc that introduced the War Machine armor in the pages of Iron Man, involved a group of cybernetic ninjas slicing up Tony Stak's normal suit, requiring a bit of More Dakka.
- A backup feature of Savage Dragon involved the cybernetic Superpatriot going up against a group of ninja cyborgs. For added coolness, they were also Nazis.
- There is a minor "Jobber"-type for-hire villain in Fred Perry's Gold Digger that is called "Tech Ninja", expert in espionage and using technological devices to replicate some of the more advanced Supernatural Martial Arts moves of the setting.
- In The Transformers: More Than Meets the Eye, to contrast with the noble, stern Samurai design of Cyclonus, Whirl is given a sleeker ninja-esque design, additionally capable of both popping up and vanishing almost from nowhere.
Films — Live-Action
- In Altered Carbon Takeshi Kovacs temporarily sleeved in a "tech-ninja" body, that particular model had mostly organic augmentations except the shaped charge in the hand but some older ones he'd used before were cybered up.
- Jack Blank features a Peacemaker named Cyberai; a ninja with bionic limbs. He gets killed when a Rüstov Para-Soldier rips off one of Cyberai's legs to replace the one he lost in battle.
- The eponymous threat from the Choose Your Own Adventure novel Ninja Cyborg.
- William Gibson's cyberpunk novel Neuromancer had a "vat-grown ninja" named Hideo who is also referred to as a "clone" (presumably the product of genetic engineering). He was an exceptionally deadly fighter. Molly tries to take him on because her old boyfriend Johnny was killed by a similar assassin, but her leg, broken in an earlier confrontation and not fully healed, breaks again before anything can really happen.
- In Super Sentai / Power Rangers series, we have some ninja-themed Humongous Mecha:
- Muteki Shogun, Juushou Fighters and Kakure Daishogun / Shogun Megazord, Battle Borgs and Ninja Megazord are ninja animal themed robots.
- Senpuujin, Gouraijin, Fuuraimaru, and Tenkuujin / Storm Megazord, Thunder Megazord, Ninja Minizord and Samurai Star are ninja Combining Mecha with power of the storm. Fuuraimaru / the Ninja Minizord later came back in an anniversary series and combined with Gokaioh / Legendary Megazord.
- Shurikenjin, Bison King, and Lion Ha-Oh are basically an example of ninja using anything that's available to them, as these mecha don't have a unifying theme otherwise.
- In RPGs like Cyberpunk and Shadowrun this is a common variation on the Street Samurai archetype.
- The Tech-ninja clans in Rifts Japan deploy these, along with Juicer and Crazy Ninjas, to keep up with their mystic rivals from traditional clans.
- Ninjas make up one of the main majorities of Katana World, and many of them are futuristic. This includes Electron Ninja, Shiden, and Nanomachine Ninja, Tsukikage (a large ninja made of a swarm of nanobots, giving him a limited form of immortality necause he's technically a blob monster).
- Zer0 from Borderlands 2. It's hard to tell whether this person is a cyborg or not, but the character has a sword for his melee weapon, uses a digital Invisibility Cloak as an Action Skill and can toss explosive kunai as one of his upgrades.
- Towards the end of Mark of the Ninja you start encountering these when your boss (apparently) turns on you and equips your fellow ninja with technology stolen from the Disk One Final Boss (technically they're only ninja wearing Powered Armour rather than being actual cyborgs, but they still have the look and feel of this trope).
- Shadow Man from Mega Man 3 was built from the ground up to resemble a ninja. He's even got a Fuuma Shuriken!
- Mega Man Zero has Hidden Phantom, one of the Four Guardians of Copy X and the head of the Neo Arcadian intel unit. He's a Reploid like any of his brethren, and is very ninja-like - using body doubles, Fuuma Shuriken, a tanto and shadow powers to go along with it.
- Mega Man Battle Network has Dusk (aka Dark Miyabi) and his Net Navi ShadowMan.EXE, proving that even in an advanced world of internets, ninjas are still good and running.
- Cyborg Ninja from Metal Gear Solid. Raiden eventually becomes one in Metal Gear Solid 4 and beyond.
- Cyrax and all of his clones from Mortal Kombat.
- In The Ninja Warriors, the title characters are a cyborg Ninja and Kunoichi. Essentially ninja Terminators.
- Ratchet & Clank: Up Your Arsenal features robot ninjas - complete with Laser Blades - as recurring Mooks.
- Hostuma from Shinobi and Hibana from Nightshade (Kunoichi).
- Strider Hiryu may be 100% human biologically, but his equipment and robot summons fit this trope to a T.
- The entire Foot Clan from Teenage Mutant Ninja Turtles, but that was more of a case of censorship.
- Yoshimitsu from the Tekken series is a descendant of the Yoshimitsu ninja clan from Soul Calibur who wears Powered Armor and carries a Laser Sword.
- In Shinobi III: Revenge of Ninja Master, the Shadow Master is an cyborg Evil Counterpart of Shinobi.
- Zero of Anarchy Reigns is an unusual example in that his powers are based around his own skill while he relies on nanomachines to survive, which makes him one of the odd non-cyborg characters in the game.
- Kai Leng from Mass Effect 3 is never referred as a ninja but is a cyborg assassin with East Asian roots who fights using a katana.
- In Virtua Cop 3, Gale is a mercenary ninja who has outfitted his arsenal with high tech equipment, which includes stealth technology. He is hired by ECM for his services to fight off the Virtua City Police Department.
- First Encounter Assault Recon: The Replica Assassins, who having cloaking devices and move insanely fast, were apparently developed as a result of research into operating in zero gravity environments.
- Warframe has plenty of sleek space-armors (frames) capable of performing acts of stealth and agility in this space-setting. The 'Ash' frame comes closest to the Space-Ninja theme though with Shurikens and Smokescreens.
- Genji from Overwatch, who's pretty clearly designed after the Cyborg Ninjas from Metal Gear and uses shurikens and a katana in a semi-futuristic setting.
- Teenage Mutant Ninja Turtles (2003): The Foot Tech Ninja wear cybernetic armor that not only makes them faster and stronger but has an inbuilt invisibility device.
- The Transformers Generation One featured the Nightbird, a twenty foot tall female ninja robot built by the Japanese. The Decepticons make their intent to steal Nightbird and manipulate her for their own ends.
- Transformers Animated has Prowl, along with Jazz and Master Yoketron. Prowl is a ninja robot, but he can combine with a sidecar forming a Samurai.
- The Fearsome Hand of Four, a team of power-armored cyborg ninja, take on Batman and Red Hood in Batman: Under the Red Hood.