C'thun, Final Boss of the Ahn'Qiraj raid dungeon from World of Warcraft, is a stock Eldritch Abomination boss with a particular affinity for eye beams. During the first phase of the encounter you're fighting an enormous eyeball (the "Eye of C'thun"), which uses an attack called — you guessed it — Eye Beam. During the second phase, C'thun will spawn so-called Giant Eye Tentacles. I'll give you three guesses as to what kind of attack these have...
The game now has another Cthulhu shout out with the Secrets of Ulduar patch — the final boss is named Yogg Saron and is verymuchanEldritch Abomination. In the instance leading up to Yogg Saron is a boss named Kologarn. He guards the bridge (well, he is the bridge) to further areas of the instance. He has a particularly nasty attack called Focused Eyebeam that he uses occasionally. (He is a construct and part of the strategy to defeat him involves destroying his arms. When he loses an arm he will yell "Just a scratch" or "Only a flesh wound!" among others, but that's another article.)
In the Plague Quarter of the Naxxramas instance there is a gauntlet through trash mobs with Eye Stalks that have a kind of eye beam attack. I'm not sure what the attack does as the guild with which I run Naxxramas makes every effort to not stay around them long enough to find out.
A number of powersets in City of Heroes and City of Villains include laser eye beam attacks.
ROB from Super Smash Bros. Brawl has these, and his Final Smash turns them into a whirling laser helix of death. They also bounce.
Tabuu uses them, as well, though they're probably the least effective out of all the attacks in his arsenal.
In the Kirby series, Waddle Doo's got... one of these. Makes you wonder about its biology, considering it is nothing but a huge eye on a tiny circular body with nubby arms and feet.
Viy, one of the bosses of La-Mulana, has a Wave Motion Gun version of this from his single eye that he can use as his most powerful attack.
The character himself is based on Viy - a monster from a horror story by Nikolai Gogol. While the Viy did not have eye beams per se, looking at his face is what breaks the holy protection circle the protagonist uses to keep the demons away when he is forced to spend several nights in a haunted church.
Zetta from Makai Kingdom has his GETTERZETTA BEAM! eye lasers, which is about the only way he can actually hurt someone following his unfortunate transformation.
In I, Robot, the eye who's watching you, kills you with an eye beam if you're caught jumping.
A bit of a variation on this trope in Star Fox 64 when Andross shoots lasers from his eyes. Why is it a variation you ask? Because his eyes detach from his brain and chase after you, spewing red laser beams.
In a platformer video game adaptation of The Great Gatsby, they took the symbolic eyes of Doctor T. J. Eckleburg and ran with it as far as they could, turning it into this craziness.
Killer7: As if creepy explosive Heaven Smile weren't bad enough, the Laser Smile variety can fire a long range beam as powerful as a normal smile's up-close detonation. Fortunately they are immobile and die after a single discharge.
The Demi-Fiend can get some of his own near the end of the game with the Freikugel skill. It's one of the best endgame skills you can have, especially if you're going for the True Demon Ending.
Kingdoms Of Amalur Reckoning takes a page out of Celtic Mythology by making one of the Tuatha's (here an army of evil Fair Folk) deadliest weapons a Balor (here a Greater Niskaru). The game's Balor is similar to the one from myth, right down to having one eye that unleashes a powerful Eye Beam when opened. The Balor also has a rider that keeps its eye shut with a harness to keep it from killing its own army with its gaze.
The World Ends with You has Shiki's third level fusion, which transforms Mr. Mew to a giant cat-godzilla thing that fires lasers from it's eyes.
KickBeat does this as part of its first boss fight, where the player protects his master from enemy mooks by jumping onto a nearby statue and firing lasers at them from the statue.
Dungeons of Dredmor gives you this power when you take the final skill in the Perception skill tree, remarking "If you can see it, you can kill it".note Why Perception? Don't ask, nobody knows, not even the Diggles
C. Viper was also given one in Ultimate Marvel Vs. Capcom 3, which is named Optic Laser, possibly as a nod to Cyclops.
Although he doesn't appear in the game as a playable character (he's a card in Heroes Vs. Heralds mode), it's been joked by fans that Godot would have one in his moveset had he made it into the roster (considering the rest of the cast, as well as howPhoenixWrightwasimplemented, it actually wouldn't be too out of place in the game).
Luigi's Mansion has a ghostly grandmother who shoots lasers out of her eyes.