In Gundam 00: Michael Trinity is The Brute in the first season, although his role his cut short when Ali double crosses him and his siblings and murders them. Depending on how you look at it, Graham Aker and/or Soma Preies may fullfill this role for the A-Laws in Season 2; Bring Stability, Divine Nova, or (female example) Hilling Care may be The Brutes for the Innovators.
Gundam AGE: In the Second Generation, following his younger brother, Zeheart's promotion to The Dragon, Decil Galette, ex-Enfante Terrible/Child Soldier and current Psycho for Hire & Sociopathic Soldier takes on this role for Vagan's forces, functioning as the high command's attack dog. As the former main villain of the First Generation, and a continuing power player in the Vagan ranks, he's one of the most prominent, and well-developed examples of this in the franchise.
Dragon Ball Z has a few examples of this, including Nappa, Dodoria, Recoome, and Android #19.
Nappa, the Older Sidekick to Vegeta, is one of the more notable examples. The first thing he did after landing on Earth was blow up an entire city, and he proved himself to be a nearly indestructible Hero Killer before Goku arrived.
Recoome is the nigh-invulnerable brute of the Five-Bad Band of the Ginyu Special Force. He is actually quite smart, but very sadistic and cruel without an ounce of sympathy, ending his "fight" with Gohan by breaking the kid's neck.
Viede from the Sinners in Chrono Crusade fills this role, although in the manga he's actually something of a Gentle Giant and a Genius Bruiser. The anime, however, plays him completely straight — most of what he does involves punching his hand into his fist and laughing evilly when he's about to smash things.
During the Nazi arc in Black Lagoon, Revy, having just come down from a bout of WhitmanFever, faces off against Fritz Stanford (or in the manga, Blitz Stanford), the biggest member of the Neo-Nazi Aryan Socialist Union. He carries a big-ass golden Luger Hand Cannon whose destructive power he shoots his mouth off about. This shooting off at the mouth gets him killed, as Revy spends the rant reloading her gun and then gunning him down mid-sentence.
Normally she's The Dragon to Mr. Chang, but Shenhua arguably fills this role in the Bounty Hunter gang that Russel hires to go after Rock, Revy, and Eda in the Greenback Jane arc. She's tough, persistent, and a physical match for Revy (though not nearly as bright), and is a secondary threat when compared with Russel's lunatic Dragon, Claude Weaver.
In Magical Girl Lyrical Nanoha StrikerS, there are several brutes among the Numbers. Dieci has the strongest firepower, Deed is the best in armed close-combat, Nove has a very hot temper whose very strong in close-combat, Sette has a heavily combat-orientated personality, and Cinque is one of the strongest, but isn't one of the Co-Dragons.
Maro, the sumo-wrestler-esque, gravity controlling Taoist from Black Cat is definitely Creed's Brute. He's big, none-too bright, a purely physical fighter, and intesely loyal. He's also the highest ranking member outside of Creed's inner circle, and often relays Shiki's orders to the other grunts.
In the Band of 7 arc in InuyashaGinkotsu is The Brute to Bankotsu, the temporary Big Bad and leader of the Band of 7. He's big, stupid, very loyal, and relies on Brute force to win, while being the lowest ranking member of the group and subordinate to Renkotsu, The Evil Genius.
Sasuke is The Brute in Tobi's post-pain Akatsuki; Zetsu and Kisame are Tobi's Co-Dragons, with Zetsu being more of the right-hand man and Kisame being more of the strong right arm, but both have Tobi's absolute trust and display Undying Loyalty to him. Sasuke, on the other hand, is well-known for his Chronic Backstabbing Disorder, so while he sees himself as an Aloof Ally or Dragon with an Agenda, Tobi tends to throw him and his followers at difficult problems, like softening up a priority target such as a jinchuuriki and a kage. The assignments he gave Zetsu and Kisame and their roles in his plans compared to how Sasuke is used makes it abundantly clear that Sasuke's quest for revenge has put him under the power of a guy who sees him as expendable muscle. The revived Madara Uchiha is this for Tobi and Kabuto's alliance (alongside Sasuke), due to him having both the Mangekyo Sharingan and Rinnegan. Then Kabuto gets taken out of the picture and Madara takes his spot in the Big Bad Duumvirate.
Conrad, the huge, apparently mute member of the Godhand from Berserk. He's almost psychopathically destructive (what with the whole, unleashing a plague thing) and seems to be lowest on the totem pole.
Valon from the Dartz arc in Yu-Gi-Oh! favours an armour deck, attacks his opponents himself, and is extremely violent. One could also make the case for Johnson of the Noah arc. He uses Judgeman for his physical body, has a special ability that just plain kills everything on the field, displays almost no subtlety in his duel with Joey, and as the company lawyer, was always the first one into a fight.
In the Duelist Kingdom arc, Panik is The Brute to the rest of Pegasus' eliminators. A gigantic man with a sadistic streak, Panik gets a real kick out of tormenting opposing players, but is really a coward at heart. He uses flamethrowers to disorient his opponents, and after losing to Yami, actually tries to kill him. Bandit Keith Howard is essentially a Brute who got away, having the personality, but being loyal to no one but himself. Among his henchmen, Dumb Muscle Zygor could also be seen as a Brute-ish type.
Ryudou "The Undead" Hishiki, in Get Backers. He's actually the only villain the titular heroes go to great lenghts avoiding to fight.
While Gamagoori is the largest member of Kill la Kill's Elite Four, Athletics Committee Chairman Uzu Sanageyama is the actual Brute, being the challenge-seeking Blood Knight and offensive powerhouse of the team.
For more Corps-specific examples, the Sinestro Corps have Arkillo, and the Red Lanterns have Skallox.
Most incarnations of Batman's foe, Killer Croc. When he was introduced in 1983, he was actually portrayed as a dangerously cunning Genius Bruiser with a chip on his shoulder, but as time went by, Flanderization set in as writers focused more and more exclusively on his brute strength at the expense of his other traits, and at his worst (around Batman: Hush), he was written as little more than a hungry animal. The introduction of Bane, another Genius Bruiser, rendered the original characterization of Croc redundant - few people remember that running Batman ragged and breaking his back was how Croc was introduced.
The current in-universe explanation/retcon is that his mutation is degenerative, slowly making his brain more reptilian as well as his body.
On the other hand, another of Batman's enemies, the Man-Bat, is usually just a near-mindless beast.
Darth Nihl and Darth Stryfe from Star Wars: Legacy are the least cunning of the main Sith characters but are their two strongest warriors. Stryfe in particular is single-minded about killing anything that his boss, Darth Krayt, doesn't like.
If a Sin City mafioso needs a big guy to smack the hero around, they will call Manute everytime. Subverted in that he is quite intelligent and rarely loses his cool.
Due to Superman's powers, several of his "normal" foes (especially Lex Luthor) often resort to a super-powered brute to do the physical work against Superman. Examples include Bizarro, Metallo and the Parasite, all of whom Luthor used as brutes in the Last Son of Krypton storyline.
When Luthor is dealing with a normal human being he instead resorts to bodyguards like Hope and Mercy.
Most of the enemies that Werewolf by Night fought were big dumb monsters out to smash stuff and hurt people.
Red Grant in From Russia with Love, who is interesting in that he also has the most direct role in the action.
Thunderball has three of them: Jacques Boitier, Count Lippe, and Mr. Janni. Vargas is also Brute-like but he is actually The Dragon.
Osato's car driver in You Only Live Twice, played by Peter Maivia, Dwayne 'The Rock' Johnson's grandfather. He can endure several hits of sofa and punching him in the face is quite ineffective (like Oddjob).
Bambi and Thumper in Diamonds Are Forever are a particularly amusing example, and a rare instance of female Brutes.
Bond films in general are an interesting case, since they often have a character filling the role of both Dragon and Brute in order to put greater emphasis on the contrast between the mental power of the Big Bad and the physical power of his top henchman. Leaving aside the smart ones like Gobinda in Octopussy—since they're pure Dragon—some classic examples of Bond Dragon-Brutes include Oddjob, Jaws, Dario, Xenia, Stamper and Hans from You Only Live Twice.
Bane in Batman & Robin. While film!Bane is an incoherent muscle-bound moron, comic!Bane is dangerously intelligent.
The Dark Knight Rises corrected this. He's a Genius Bruiser now, but still fits the role - whether or not you believe that he's serving directly under Talia, he is still part of an evil team with her and serves as her muscle.
In Tim Burton's Batman, the Joker had Lawrence, who also carried around a boombox to provide the background music.
Jack Napier himself was the Brute for Carl Grissom's gang, being the most physical of the hoodlums. Of course, it's not all that hard to bully a Fat Bastard like Eckhardt.
Brawl might also qualify. He is the most heavily armed Decepticon and the toughest one to kill. It took the combined efforts of the human military and all four non-Optimus Prime Autobots to finally put him down for the count. His alt mode is a literal tank.
Blackout could count seeing as he's the most heavily armed character and the largest one in the movie.
In the second film, Grindor acts as this during the 3-on-1 battle in the forest while in the final battle, the role clearly belongs to Devastator.
Demolisher could count due to his large size and that he just uses his weight instead of a weapon.
Man of Steel: During the Battle of Smallville, Faora is accompanied by Nam-Ek, a fellow Kryptonian warrior. The difference between the two is that Nam-Ek's nine feet tall and encased in armor. He noticeably matched Superman in strength while Faora has speed and skill.
Gregor Clegane from A Song of Ice and Fire is this to a T. He's not on any inner circle, in part because he's too psychotic for that, and because Lord Tywin doesn't really keep an inner circle, (he has one or two people he genuinely consults with, the rest are dupes that he manipulates) however he is Tywin's choice for virtually all of the dirty and bloody work that needs to be done, and shows real taste for and skill at it. He's also the World's Strongest Man, and will gleefully show it off.
Similarly, Victarion Greyjoy is this for House Greyjoy. They also make an interesting comparison, as they are two very different characters who fall under the same trope type; while Clegane is a vicious and amoral sadist, Victarion is The Fettered, believing wholeheartedly in the grim, Even Evil Has Standards code of honor that the Iron Men share.
During the last story arc of K.A. Applegate's Animorphs, and the books leading up to it, the kids reflect that Visser Three is an incompetent tactician and instead relies on technological advantages; he's pushed for all-out war since the beginning. "He doesn't know tactics," Jake says, "he fights with a sledgehammer."
Adus in David Eddings' Elenium trilogy. "Just put armor on a gorilla and you've got him." He's a mentally-handicapped thug who serves Martel as his best enforcer and killer. Martel considers Adus to be little more than a weapon ("I use him for killing people") and everyone who meets him looks down on him due to his stupidity and lack of hygiene. He has all the hallmarks of the personality type too, being dumb, but a savante when it comes to small unit tactics, willing to cut through his own men just to get to the heroes, and lacking the ability to so much as read.
He may be the King of Cthol Murgos, but one could definitely make the case for TaurUrgas being The Brute in Eddings' other major series, The Belgariad. He's got all the hallmarks of the personality: no empathy, Axe Crazy, a Berserker in combat, and he also seems to fit in terms of his position and role in the villainous hierarchy: he's the ruler of one of the largest countries subject to Torak, and provides manpower and muscle for the Angarak armies, while still being subject to Ctuchik, Torak's Dragon.
Lu Bu in The Romance of the Three Kingdoms. Initially, he is able to handily intimidate all dissenters from taking down Dong Zhou, drive away Cao Cao when Cao Cao comes to assassinate Dong Zhou, and take on Zhang Fei, Guan Yu, and Liu Bei at once. Guan Yu, Zhang Fei, and Liu Bei are held up as amazing warriors because three on one they didn't flee Lu Bu and forced him to retire. Lu murders his lord and adopted father for a horse, his next lord for a 16 year old dancer (not that kind), and dies an alcoholic wreck of a man.
Ronald Niedermann from The Millennium Trilogy is able to deal out a lot of pain, being able to break normal people's necks like sticks. Coupled with the fact that he is unable to feel pain due to a neuralgic defect, it makes him nearly unstoppable.
In the Black and Grey Morality world of The Godfather, Luca Brasi is a rare protagonist version of this, but man is he brutal! Read 'throwing a newborn baby in a furnace because he didn't want illegitimate children' brutal.
Eliot Spencer, The Big Guy in Leverage sometimes acts more like this trope than is usual. The show also provides a number of straight examples, most of whom eventually fight Eliot at one point or another:
From "The Wedding Job", there's The Butcher of Kiev, who's probably the most archetypal Brute on the show. A hulking thug in the employ of the Russian Mafia, The Butcher is a Knife Nut who uses his massive size and fondness for meat cleavers to overpower his opponents, and is far too stupid to be anything more than a leg-breaker. He has a personal grudge against Eliot for scarring his face in an earlier confrontation.
Mr. Quinn, of "The First David Job" is a nondescript Badass in a Nice Suit retained by Nate'sEvil Counterpart, Sterling, for the specific purpose of beating Eliot into submission. Not important enough to be The Dragon he displays enough personality to avoid being a simple Elite Mook, and his role as the muscle puts him firmly in this trope. He later reappears during "The Last Dam Job" to help Eliot when Eliot is recognized by the mark. He and Eliot seem to get along despite their previous conflict.
Finally we have Roper, a member of the kidnap gang in "The Carnival Job." He's a Psycho for Hire who seems to have a personal history with Eliot and is probably the best fighter the gang has available, as well as a ruthless Combat Pragmatist (seriously, he attacked Eliot in a funhouse, while he was injured, and still made sure to have a little girl as a hostage). However, he's not the Number Two, and seems to have been contracted for his skills at breaking heads and nothing else, not even appearing until the end of the episode.
Branken from Mahou Sentai Magiranger. He's the most hot-headed of the villains, and the only character in a magic-themed series to rely on a BFS rather than spells. He'd also qualify for Disc One Final Boss if N Ma hadn't been present, if trapped, from the beginning.
In the 2010 version of Nikita, Roan fills the role. A Cleaner who Nikita scarred by his own acid and silent badass, the universal reaction to encountering him is to wet your pants and run.
Roan may be so deadly that he qualifies as a Hero Killer. To date, Nikita is the only one who managed to get one-up on him, and she still runs if she has the chance when he shows up.
As of mid-Season 2, it can also be argued that Roan has elements of The Dragon — he's Percy's most loyal and deadliest remaining agent, and the one organized the Guardians into action when Amanda and Oversight locked Percy up.
Leo Johnson on Twin Peaks. Hired goon, abusive husband, profane loudmouth: the whole package.
The Wire has at least one for each major organization. The Barksdale Organization has Roland "Wee-Bey" Bryce in Season 1, (and later Slim Charles after Wee-Bey gets life in prison) Husky Ukrainian Sergei Malatov for The Greeks, and the rare case of a female brute in Felicia "Snoop" Pearson for the Stanfield Organization.
Boyd Crowder has the less obvious Jimmy Tolan, a quiet, loyal thug who plays back up to whoever Boyd's Dragon of the moment is, displays some Blood Knight tendencies and acts as his enforcer while being at the edge of the inner circle.
Another type of Brute that pops up occasionally in professional wrestling is the most physically imposing member of a heel stable, such as Batista's role in Evolution. This can sometimes overlap with being The Dragon to the stable leader's Big Bad, such as Mason Ryan in The New Nexus.
One of the archetypes for slashers in Hunter: The Vigil is the Brute, a strong man (or woman) who kills just because it feels right. Their natural talent embodies the slasher trope of "the killer gets back up just when you think he's dead," and they eventually become the Mask, which is like Jason Voorhees on PCP.
The orks of Warhammer 40K are an entire species devoted to this trope, being genetically engineered for nothing but war.
Wyzen in Asura's Wrath. Big, fat, wielding a Power Fist as big as he is, he is the largest and dumbest of the Seven Deities.
Flak in Advance Wars 2. He also appears in Dual Strike, but has no role in the story. (His Limit Break is called "Brute Force".) His role as The Brute is filled in the new Black Hole by Jugger, who has the exact same abilities as him.
Jugger (at least when the CPU is controlling him) switches from The Brute to Genius Bruiser when he uses his Super CO Power, which gives him a huge AI boost as well as an attack power boost.
Heidegger in Final Fantasy VII doesn't do too much direct fighting himself, but fills this role in ShinRa's army.
Oogie Boogie served this role in the original game, though ironically being the weakest villain of the group physically, relying on his deadly casino traps to fight.
An archetype in City of Villains is actually called The Brute, though thanks to the variety of powersets available (and the free-reign character creation), all player characters of this archetype doesn't necessarily fit the trope - at least the "big" and "all muscle" parts. You can just as easily make an incredibly agilerapier-wieldingBrute. They do love to fight, though - the archetype's entire schtick is that they get stronger as a fight goes on.
Berserker/Hercules from Fate/stay night. Actually, pretty much any "Berserker" class Servant. The class drives them completely insane so they really can't do anything other than Attack! Attack! Attack!, but to make up for it, their physical strength, speed, toughness, etc all get a massive boost (and Servants are almost always very, very strong to begin with).
Largo the Black Lion from Tales of the Abyss fits the role but also subverts it: A giant man over six feet tall and wielding a Sinister Scythe, he is a Well-Intentioned ExtremistWarrior Poet who is usually very calm and collected, and views battle as a means to an end and not as an end in itself. He is also something of a Worthy Opponent. Although he is the first God-General defeated he returns to plague you several times, and in each of his appearances he's usually strong enough to be a match for a full party.
Raven from Metal Gear Solid fits this in terms of appearance and group role: a huge man, all muscles, who goes into battle carrying a Gatling gun, and eschews the schemes of the rest of the group. In personality he's a major subversion, being an intelligentWarrior Poet shaman, and possibly an Anti-Villain going by how he says he doesn't actually want to live in the sort of world being created by Liquid and The Patriots, and how he welcomes death, rejoicing in returning to "Mother Earth".
Dapang from John Woo's Stranglehold, who also has the distinction of being Wong's Dragon. On the Golden Kane side, we have Ty Lok, who Tequila fights in the third major mission, who isn't as big and powerful as Dapang, but does pack a big whackingmachine gun.
Thing is, while he mostly qualifies for simply The Big Guy of the second variety while on your team, he definitely qualifies as this while on the other team, since while he is generally one of the nicest members of the cast to his other team members, he is taunting and berating to his enemies.
Halo has well, The Brutes (Species name: Jiralhanae). One is pictured above without a helmet. They're scarier without helmets on!
In Wild ARMs, Belselk, the first member of the Quarter Knights, is definitely The Brute of the squad. He's a rare case that's actually stronger than The Dragon, and Zeikfried admits this in the remake, calling him the strongest fighter of the Quarter Knights. The heroes were only able to beat him because a trap backfired and left him weaker. The remake had Alhazad revive him after his death at the hands of Boomerang, and he returns near the end of the game to pay Boomerang back then goes on to face the heroes one last time just before the Big Bad.
Mega Man: Dr. Wily's Revenge, the first of the Mega Man World series, stands as the only game in the Classic continuity to not have a Brute type character, as, despite reusing Robot Masters from the first two games, neither Guts Man nor Wood Man return. The sequels, however...
Mega Man World II: Wood Man, who decided to show up in this game instead, and Hard Man
The Witcher, has Savolla. It is very unusual for The Brute to be an Evil Sorcerer, but he is still this. He is the first opponent that The Hero faces and he also, aside from being a sorcerer, has also strong-like appearance.
Blazing Sword, a previous installment of the series, features Denning. He doesn't actually seem to be part of the inner circle of villains (as he has no scenes with the Big Bad or any other prominent enemies) and he's a one-chapter wonder, but he fits in that he's dumber than a post and exists solely to sic legions of even stupider Mooks at you. He's also the only physical attacker among the Morphs.
Binding Blade, Blazing Sword's sequel, has Wyvern General Nacien. He's the most destructive and ruthless of the three Wyvern Generals, but in last place among the three with regards to sanity, loyalty, courage, tactical aptitude, and fighting skills. Makes you wonder how he even got hired.
Assassin's Creed IV: Black Flag has El Tiburon who throughout the entire game exists as a physical threat and a bodyguard to Torres. He does not say a word throughout the entire game including in his dying moments.
Homestar Runner has its resident brute in the form of Strong Bad's brother, Strong Mad.
A Bug's Life gives us Thumper. He's so vicious the other grasshoppers have to keep him on a leash much of the time.
The Fairly Oddparents has Francis. He's usually just a bully, but in episodes where he's changed through magic, like "Timmy the Barbarian" or "The Big Superhero Wish" he takes on this role a lot more seriously.
Siege in The Mighty Ducks cartoon. Not particularly dumb but definitely the biggest and strongest of the Saurians, who prefers brute force.
The Rhino, a Supervillain in The Spectacular Spider-Man, definitely qualifies, being especially powerful, threatening and dumb. Other brutish types include his former partner the Sandman, who has the good fortune to be a little more clever and less single-minded, and The Dragon Hammerhead, who is intelligent enough to loyally serve the Big Bad (until eventually betraying him during a gang-war).
Pinning down this role in Beast Wars is difficult. Scorponok has the personality, but he's Megatron's Number Two; same goes for Inferno who's more or less The Dragon following his initial appearances. The arrival of Quickstrike in Season 2 marks the first time that the team has a dedicated Brute; he's short-tempered, psychotic, and low on the hierarchy due to his status as a newbie. Rampage is somewhere between this, and an unwilling Sixth Ranger. He's kept under control by a Restraining Bolt, has more physical power than any member of the team (including The Big Bad), and is a Genius Bruiser in the vein of Hannibal Lecter.
Also both Skyquake and Dreadwing, two brothers who are loyal to Megatron and use heavy weapons, can count (although Dreadwing become The Dragon after his initial appearance, and is actually a Genius Bruiser).
Hardshell, an Insecticon with a personality and voice now serves this role. Well, he used to, then he got hit with a bunch of missiles from the Jackhammer and is dead now.
Season 3 introduces the new Predaking. A massive ancient Draconic Cybertronian beast revived by Shockwave to hunt the now scattered Autobots. Powerful enough to through around both Wheeljack and Bulkhead and durable enough to barely notice a grenade going off underneath it and only slowed down being crushed by a mine falling on its head. Later he reveals that he is capable of transformation. When he speaks for the first time he reveals a rather eloquent and almost tragic side, being alone and unsure of his destiny. Megatron is not pleased to discover that his new "Brute" is actually a Genius Bruiser capable of overthrowing him if he so chose.
Skylynx and Darksteel play this role in Predacons Rising.
Thundra in the Ultimate Spider-Man animated series is a rare female example. She's the muscle of the villainous Frightful Four.