The "Chicken Boo" sketches on Animaniacs had only one person realizing that Chicken Boo was actually a giant chicken in a ludicrously flimsy disguise. Nobody would believe them (or misinterpreted the use of 'chicken' as an insult, as in coward), and even when Boo's deception was eventually revealed (by some event unrelated to their efforts), they never got any credit for their insight.
Animaniacs also had Scratchensniff.
In Invader Zim, Dib is the only one who knows or cares that Zim is an alien, no matter how obvious it becomes. Gaz is a twist; she knows perfectly well that Zim is a would-be alien conqueror, and doesn't care because (in her own words) "he's so bad at it."
Arguably Gaz is even more so than Dib. While Dib obsesses over Zim's constant plots, Gaz is all too aware that Failure Is the Only Option for the Chaotic Stupid Zim and is content with just letting him screw himself over, (though discounting the times Dib's intervention was the only reason Zim failed).
Originally, both of the Tallests were shown to be somewhat moronic, but Red's Divergent Character Evolution was sending him in this direction, best evidenced in "Backseat Drivers from Beyond the Stars".
The episode "Homer's Enemy" featured the character Frank Grimes, who is the only one of Homer's co-workers who recognizes his pathological boobery. He tries to point it out to everyone, but to no avail. He eventually works himself up over it so much that he has a nervous breakdown, during which he accidentally electrocutes himself. After some fans complained his treatment seemed a little mean-spirited, DVD commentary explained Frank was mainly a device to show a normal person couldn't function in the show's universe.
Lisa Simpson also often finds herself thrust into the role of only sane...girl. Quite often, when her family (or occasionally, the entire town) is caught up in some insane course of action, she's the one who points out how absurd things have become. Her comments are usually ignored. The straight man role is usually traded between Lisa and Marge. Sometimes Lisa is also caught up in the craziness, for example with the Movementarians.
There are even times that only the Simpson family who really knows what's wrong, and have the guts to do something about it, putting the whole family in this role.
Lou is the only sane man in the police force in Springfield, and frequently points out Chief Wiggum's incompetence or stupidity.
Carl Carlson is this, at least in comparison with his friends.
Other characters to have this role on a semi-regular basis include the more conventionally competent characters such as Apu (and his brother Sanjay is this to him when he has gone a bit too far with his work), Dr. Hibbert, Superintendent Chalmers, Sarah Wiggum (within the Wiggum family - "Clancy, use the remote") and Waylon Smithers.
In Sealab 2021, Doctor Quentin Q. Quinn is the Only Sane Man. At least in the beginning of each episode. Often the sheer insanity of everyone else becomes contagious or he would get fed up with the insanity and blow up Sealab.
Hank Hill of King of the Hill is a shining example. In his version of The Rashomon, he sees himself as the only adult among children, and in a hallucination caused by varnish fumes, he imagines the rest of the world as helpless rodents on a Whack-a-Mole board.
Boomhauer also plays this role too. While he certainly does pick up the Idiot Ball on several occasions, he's easily the most rational of Hank's friends. Heck, Hank barely has to babysit him at all.
Bob the Tomato, in the VeggieTales cartoons — in the opening and closing sequences where he plays himself, he consistently provides a voice of reason on the show. During the actual episodes, he is almost invariably cast in the role of a character who is competent and sensible, unlike most of the others.
Louise in Slacker Cats is the voice of reason throughout the show but Buckley does zig-zag between being this and one of the many crazy people/cats throughout the show.
And occasionally Private. For example: "The Red Squirrel." And Marlene, all the time (except when she's outside the zoo grounds or talking about Spanish guitars). Rico once, actually. In "The Hidden" he keeps Kowalski and Skipper focused on the task at hand (finding their friends). Skipper, never. Kowalski, almost never. Though he thinks he is. Julien, no way. Mort, uhh... No...
Number 1: Abby, we both know you're the only one on this team with any real common sense. When I'm screaming that we're being invaded by tiny, kid-eating leeches falling from the sky, you're the one telling me it's only snowing.
Rocko from Rocko's Modern Life seemed to start out this way, a hapless bystander trying to use logic to navigate a thoroughly insane environment and oftentimes failing. Strangely, he seemed to lose this as the series also took a turn away from being as surreal as it once was.
Stan. Kyle has the appearance of being sane as well, but unlike Stan, is unable to understand just how moronic the actions of all the insane people around are. Among the adults is/was Chef and, on occasion, Jesus.
In the "Pandemic" episodes, Craig took on this role, as he pointed out the ridiculous situations the characters were always getting into, delivered entirely in deadpan style. Every character except for Stan has derailed into being insane, stupid, or a Jerkass. Kyle really doesn't apply for the Only Sane Man because he is just as immoral and sometimes cruel as Cartman when It comes down to it. Whenever Cartman is involved, Kyle is far from sane to say the least.
Kyle's tendency to have quite a temper to the extent of being damn near bipolar excludes him from this on a regular basis, but there are instances where he plays this straight. The episode concerning the economy and the absurdity of aestheticism is a crowning example. Even "You're Getting Old" has him playing this to Stan of all people.
When he was around, Chef was usually one of the very few adults with any kind of common sense.
Sharon has become the closest to fulfilling this in Chef's absence.
President Bush, ironically enough, especially when compared to his cabinet and the press. "A Ladder to Heaven" contains a particularly infamous example.
By this point, it appears that Kenny is the only one that has showcased routine common sense throughout the series. This is arguably lampshaded by Butters (of all people) in Going Native where, after chewing out most of the others kids for their quirks, claims that Kenny is the only one with "any sense of dignity."
Apparently, Father Maxi is the 'only' catholic priest who doesn't rape boys.
Shnitzel from Chowder is usually a good example, though he does a have a few lapses into the weird goings-on in the show.
On The Fairly Oddparents, Wanda is usually the only one aware of how insane everything is, or knowing of how bad everything is going to end up. (Just keep her away from chocolate.)
This fact is often pointed out by Timmy and Cosmo, but they still continue with their antics despite that.
On the Animated Adaptation of Wayside, Todd is repainted as the only one using real world logic while everyone else is using Wayside's logic.
Even more so Suki, when she is with the group. She's the only of the main and recurring characters who could be considered to be normal. She takes it quite gracefully, though.
Also Katara sometimes, most notably in the episode The Runaway, in which she is the only one who realizes that excessive scamming of scammers will come back to bite them eventually. Toph started the whole thing, and Sokka being involved is not horribly surprising, but Aang should have known better.
In Sequel SeriesThe Legend of Korra, Tenzin is this to the council as a whole. They don't seem to realize their decisions and actions are further proving the point the Big Bad is making, and he is even outright ignored. To further it, he also plays the role to Korra and (in a comedic sense) to his family.
Mako (and to an extent President Raiko) is becoming this in the second season. Midway through, he's the only one interested in figuring out who's behind a string of bombings in Republic City beyond making the presumption that it's all Northern Water Tribe, as everyone else is acting according to Varrick's manipulations. Korra's hell bent on getting revenge against the North for both Unalaq's machinations and the above misattributed offenses, Bolin's become wrapped up in new celebrity status, Asami's struggling to keep her company afloat and losing hope because of it, and even Lin Beifong is pulling rank on Mako in favor of two mustache-twirling detectives who don't seem to be doing their jobs. And of course Varrick is pulling everyone's strings in the name of War for Fun and Profit.
Between Eska being an abusive psycho and Unalaq shaping up to be some sort of Well-Intentioned Extremist regarding the Water Tribe's spiritual issues, Desna's developing habit of asking questions is putting him on the road to this trope within his family.
The Venture Bros. has Doctor Venture, who often tries to be the Only Sane Man, but his childhood always catches up to him. Usually, the role ends up being filled by one-shot bad guys that question the Venture Team's logic. You know you have problems when a flamboyant super-villain is judging you.
Brock fills this role quite often as well, in spite of murdering multiple people on an almost daily basis. He's generally the sanest, most level-headed and most competent member of Team Venture, so it's not hard for him to slide into the role and see just how absurd his life and the lives of those around him are.
Dr. Venture:(As a party being thrown by his brother sits on the brink of collapsing into madness) Huh. When you're not the one in the middle of it all, it's actually pretty obvious.
Brock: Welcome to my world.
On the villains' side, Dr. Girlfriend is likely the closest thing to a competent one (at least compared to the Monarch and anyone else affiliated with him).
Family Guy: Brian Griffin is often portrayed as the Only Sane Man, although everyone who isn't Peter ends up playing the Only Sane Man once or twice.
Kim Possible has Shego. Any episode featuring Doctor Drakken will have her standing off to the side making running commentary on the absurdity of his plan, or how it will inevitably fail because of one major overlooked factor. It is also implied in the episode 'Go Team Go' that this was the reason for her leaving the team of superhero siblings and going bad.
Gwen from Total Drama is one of the most normal contestants, and qualifies as this for most of Total Drama Island. Noah is more of a classic example, especially when you compare the rest of his team in World Tour (excluding Alejandro, who gets this whenever Noah's having fun). As of World Tour, Noah is the best example.
As quoted above, Sally seems to be the only denizen of Halloween Town who even approaches the realization that people don't want to be scared or attacked on Christmas.
Despicable MeandMegamind would have two in each movie: Dr. Nefario and Margo in the former, and Minion and Roxanne in the latter.
Captain Star's First Officer Scarlett is the one who actually gets the work done between an egotistical captain, a fish obsessed cook and an engineer whose isn't that crazy, in fact, he's perfectly sane. He has nine sane heads on a single body.
In the X-Men animated series, the largest of the sentinels (robots designed to capture people) is called Master Mold. He/It starts trying to take over the world. When reminded by his creator that his mission was to protect humans from mutants, Master Mold says, "That is not logical. Mutants are humans. Therefore, humans must be protected from themselves." Not a bad realization for a robot antagonist that Professor X called "the embodiment of human hatred" that was created by another antagonist.
Danger Mouse. He has to deal with a Cowardly Sidekick (Penfold) and an addled, near-senile superior (Colonel K). DM will either take the initiative and stop their banter or just throw up his arms in defeat.
In CatDog, Mervis and Dunglap are the only normal characters in the series.
Panda of Skunk Fu! knows what's best for Skunk (seeing that he's his master).
Lin Chung of Hero 108 is always calmer than the rest of the cast.
Titan Maximum deconstructs the idea of the Only Sane Man with Gibbs. Being the only competent member of the former Titan Maximum team eventually drove him into hating everyone else on the team and performing a Face-Heel Turn on the first episode. The fact that he's the Only Sane Man makes him a very effective villain, albeit an incredible Smug Snake.
Charles Offdensen from Metalocalypse. We actually see him go through the three stages in the background; by the time season two ends, he's learned to roll with it. Season three sees him realize that he's not the Only Sane Man. He's just the Only Sane Man on his side of the conflict.
Transformers Prime actually has this in one of its human characters, Jack Darby. Unlike almost every other human in the Transformers universe, he knows that getting yourself involved in the front lines of an alien robot war is more dangerous than awesome. In fact, he tried to avoid all contact with the Autobots at first before some convincing.
The villains have Soundwave, who doesn't share the sociopathy or megalomania of most of the other Decepticons and is far and away Megatron's most loyal and competent henchman. Be warned: This trope does not in any way make him less dangerous than the others. At all.
Elise is probably a better example, given Chris tends to go along with Dan's schemes. Though she does have her moments of Not so Above It All.
Edd (also known as Double D) from Ed, Edd n Eddy usually fills this role.
Hermes often takes this role in Futurama most notably in Bender's Big Score'' where he's the only person to realize the crew is being scammed. He's also the most consistent critic of the incompetent Zoidberg. Depending on the episode, though, Leela, Amy and even Fry have occasionally filled the role.
Hermes' role is well exemplified in "The Duh-Vinci Code":
Professor Farnsworth: We must fly to Rome and exhume the body of Saint James!
Hermes: Didn't we used to be a delivery company?
Goof Troop has Peg and PJ both in this role, however, usually not at the same time, as Peg tends to have little screentime in PJ and Max episodes and PJ acts as a Satellite Character in most Pete and Peg episodes. Overall, Peg is more likely to be silly than PJ is, but PJ is more likely to misunderstand a situation than Peg is—though both are usually the voice of reason for the others. The characters are far more likely to listen to Peg than they are to PJ because Peg is a lot more assertive than he is. Considering the rest of the cast consists of a Cloud Cuckoolander, an irrational Jerkass, a Fearless Fool, and a Genki Girl...
Bugs Bunny, of all people, spends time in this role in episodes of The Looney Tunes Show. Mind you, when you spend most of your time with a) Daffy and b) Lola, it's hard to avoid this characterisation.
While Kitty from Tuff Puppy has the occasional tendency to act goofy she is arguably the most level-headed character when compared to Dudley, or anyone else on the show for that matter.
Ollie the opossum can also be considered this.
Tommy Anybody from Mr. Bogus invariably falls into this role, when having to deal with the wacky antics of Bogus (and occasionally Brattus).
This is how Twilight Sparkle feels when she first comes to Ponyville. It doesn't help that the first pony she meets there is Pinkie Pie. More generally, Twilight often (but not always) plays this role in other episodes.
Averted for Twilight with "Look Before You Sleep". She goes a bit obsessive to check the list to the point where she has to actually check whether a big tree crashing in her home is part of a sleepover. She also completely loses it when the Parasprites begin to eat the town in "Swarm of the Century"
Apple Bloom also qualifies as this in "Bridle Gossip", as she was the only one who didn't jump to conclusions about Zecora after the "curses" occurred.
One of the great things about the show is that the characters are multifaceted enough that many of them can take up the Only Sane Mare role depending on the situation. Even Pinkie flirts with this role in "Griffon the Brush Off".
Spike is usually one of the sanest characters, it becomes especially noticeable once Twilight starts acting screwy. Even he has heavily flawed moments and has to be kept in check however (Only Sane Men don't usually have Dastardly Whiplash alter egos).
Applejack also plays the more rational character in many episodes, though like Spike and Twilight, still has defining flaws and a good few episodes devoted to her playing up.