Cam Fisher, a character in The Clique Series. Cam has one green eye and one blue eye.
Clinton Tyree, a character in several novels by Carl Hiaasen. Tyree's condition is not true heterochromia. Both of his eyes are originally green, but after losing one in a savage beating, he replaces the socket with a crimson glass eye taken from a stuffed barn owl.
Diogenes Pendergast, the brother of F.B.I. Special Agent Aloysius Pendergast and the major antagonist of three novels by Douglas Preston and Lincoln Child. Diogenes has one blue and one red eye, which his brother attributes to a brain injury suffered in a failed suicide attempt when he was a child.
Hatake Kakashi, a character in the anime Naruto. Kakashi's left eye is red and his right eye is black. This is due to an eye transplant from Kakashi's teammate Obito. His red eye contains Sharingan capabilities.
Allelujah Haptism, a character in the Gundam anime Mobile Suit Gundam 00. Allelujah's left eye is gold while his right eye is silver. During the first season, one could tell when Allelujah's alter ego took control of their body since the gold eye was visible rather than the left/silver eye.
Apache, a character from the Anime series Bleach. Her left eye is brown, her right eye light blue.
Asuna Kagurazaka, a character in the anime and manga series Negima!. Asuna's left eye is blue and her right eye is green.
Dark Pretty Cure, an antagonist in HeartCatch PreCure!. Her left eye is blue and her right eye (when open) is yellow.
Kimihiro Watanuki, a character in the anime, manga, and light novel series xxxHolic. Kimihiro has one blue eye and one gold eye, the latter due to his "rival" saving him.
Renton Thirston & Nirvash from Type Zero. Renton & Nirvash's eyes become blue and purple when Eureka and Renton are fused.
Suiseiseki and Souseiseki, twin dolls in the anime and manga series Rozen Maiden. Suiseiseki's left eye is green and her right eye is red. Souseiseki's eyes are the reverse; she has a red left eye and a green right eye.
Yoru, a character in the anime and manga series Sukisho. Yoru is the split-personality of Sora Hashiba. While Sora is Yoru his left eye is gold and his right eye is blue.
Yubel, a character in the anime series Yu-Gi-Oh! GX. Yubel's heterochromia is the result of a ritual to make her the protector of Prince Haou, which drastically altered her body, giving her a demonic appearance, and splitting her body down the center into a masculine half on the left and a feminine half on the right. The masculine half retained Yubel's original violet hair and turquoise eye color, while the feminine half gained white hair and an orange colored eye. After Jaden Yuki fuses his soul with Yubel's, his eyes occasionally glow with the same heterochromatic scheme as hers when he is manifesting her power.
Vetti Sforza, the main antagonist from the anime Glass Fleet. His right eye is gold while his left eye is brown.
Lady, a character in the video game and anime series Devil May Cry. Her right eye is blue and her left eye is red. Lady shares this trait with her father, Arkham, a clue to their relatedness.
Ranulf, a character from Fire Emblem. His left eye is green and his right eye is violet.
Peri, a character from Fire Emblem. Her right eye is green and her left eye is red.
Sig, a protagonist in Puyo Puyo Fever 2. Sig's heterochromia comes from the non-demon parts of his DNA. His left eye is red, while his right eye is blue.
Yuna, a character in Final Fantasy X and Final Fantasy X-2. Yuna's heterochromia is due to her mixed ancestry. In the Final Fantasy X universe, the Al-Bhed people all have green eyes with spiral-shaped pupils. Yuna's left eye is blue, while on the right she has a green eye with an ordinary pupil, signifying her half Al-Bhed heritage.
Jefferson Twilight, a character in the Venture Brothers cartoon. His right eye is brown while his left eye (Blood Eye) is red and can detect Blaculas.
Jerry Segel, a county employee played by Kevin Pollack in Wayne's World 2. Jerry Segel has partial ocular albinism (a condition similar in appearance to heterochromia) in his right eye, which Wayne & Garth find disconcerting.
Simon Phoenix, the main antagonist in the film Demolition Man. His right eye is brown while his left eye is blue.
Alice Harris and her son, Andy, characters in the film 28 Weeks Later. Alice's left eye is green and right eye is blue. The condition signifies that they are both asymptomatic carriers of the Rage virus.
Delirium, a character in the comic series The Sandman. Her left eye is green and her right eye is blue. She apparently had two matching eyes when she was still Delight, but they changed when she became Delirium.