Gordon (Agents of S.H.I.E.L.D.) lost his eyes as a result of undergoing Terrigenesis to activate his powers.
Despite being blind, Toph Beifong (Avatar: The Last Airbender) is capable of "seeing" by sensing vibrations.
After losing his sense of touch, Peyton Westlake's (Darkman) body overproduces adrenaline, granting him superhuman strength and immunity to pain.
Having been deliberately raised to interpret body language as a first language, Cassandra Cain (DC Comics) is illiterate and barely able to speak, but as a trade-off, she can intuitively read body language and predict her opponents' attacks.
Majora (Dragon Ball Super) compensates for his blindness through a highly sensitive sense of smell.
Due to his lack of a "Delta brainwave," Philip J. Fry (Futurama) is mentally handicapped, but also immune to psychic powers like Telepathy and Intelligence Reduction.
Due to his blindness and the fact that magic has to be seen and heard for spells to affect people, Jeffrey Robbins (Gargoyles) is immune to magic.
After having his left hand petrified in the shape of a clenched fist, Owen Burnett (Gargoyles) uses it to his advantage to deliver powerful punches.
Suzu Mukai (Horizon In The Middle of Nowhere) is able to use all her other senses in a 360 degree area around her to compensate for her lack of sight.
After being blinded by radioactive waste, Matt Murdock (Marvel Comics) developed superhuman senses and a radar sense to compensate.
As he evolved over the centuries, Turel (Legacy of Kain) developed enhanced hearing at the cost of his sight.
After losing his left forearm during the Eclipse, Guts (Berserk) replaced it with a metallic device known as the Cannon Arm.
Neo's (The Matrix) eyes were damaged during a fight with Smith, but...
...he developed a new perception of sight.
After being blinded by Shang Tsung, Kenshi Takahashi (Mortal Kombat) developed telekinetic powers and enhanced senses.
Lickers (Resident Evil) have lost their eyes as a consequence of their mutation, but have superhuman hearing to compensate.
After being blinded by Shishio, Usui Uonuma (Rurouni Kenshin) learned how to compensate using his hearing and spiritual senses.
Clark Kent's (Smallville) super-hearing initially manifested to compensate after he was temporarily blinded.
Having lost their eyes, the Miraluka (Star Wars) have learned to "see" through the Force.
After his mutilation on Mustafar, Darth Vader (Star Wars) became heavily dependent on the Dark Side of the Force to marginalize his wounds, allowing him to be self-sufficient again.
Dezel (Tales of Zestiria) compensated for his blindness by learning to read the wind.
After being rendered blind by the growth of fungal plates over their eyes, Clickers (The Last of Us) developed echolocation capabilities to compensate.
Fujitora (One Piece) has extraordinary mastery of Kenbunshoku Haki, which can easily compensate for his blindness.
Wonderweiss Margela (Bleach) has sacrificed all his intelligence and mental capacity in exchange for being able to seal the immense fire based powers of Ryūjin Jakka.
Due to his injured leg, Shuu Sakurada (Castle Town Dandelion) compensates via his ability to teleport, allowing him to continue living a normal life.
Vanessa Brewer (Angel) blinded herself as part of her training with the Order of the Nanjin, which granted her the power to sense energy sources and motion in a manner far more accurate than ordinary sight.
Though blind, the Rat King (Teenage Mutant Ninja Turtles 2012) compensates by being able to control rats and see through their eyes.