This was the ultimate plan of Emperor Charles, V.V. and Marianne in Code Geass, referred to as a "World without Lies".
The surface world in Texhnolyze is pretty much this. It's a serene village stuck in 1920's scenery, perpetually sunny with green fields as far as the eye can see...but nothing is actually alive in there.
The title character of Noein tries to do this to the entire multiverse, wanting to integrate every time stream to exist ever into The Shangri-La in an effort to start anew with no sadness or pain. As such, Shangri-La, as viewed by the protagonists, is a peaceful place devoid of intelligent life.
SEELE from Neon Genesis Evangelion intend to remove longing, suffering, and loneliness from the world, via Instrumentality. The end result is the entirety of humanity merged into a sea of LCL where individual existence is impossible.
The Z-Master from GaoGaiGar wanted to save people from the despair and sadness of reality by mechanizing the universe, eliminating negative emotion (and every other emotion at the same time).
Tengen Toppa Gurren Lagann had the Anti-Spiral who had his entire planet put into stasis in order to stop their evolution in an effort to prevent the Spiral Nemesis, a universe-destroying black hole.
In Naruto, this is how the Allied Shinobi Forces regard Madara and Obito's plan to create world peace. When Madara succeeds it becomes literally true as every human is wrapped in cocoons and suspended like trapped insects from the God-Tree's roots.
Joe Kelly's Deadpool run. The Messiah froze everyone in the world in blissful mindlessness.
In the ElfQuest: Siege at Blue Mountainarc, Winnowill's master plan involves merging Blue Mountain and the Palace into a space habitat in which all of the pure-blooded elves will dream forever, free from (literal worldly) conflict. Of course she fails (again).
Swamp Thing winds up in one in the issue "My Blue Heaven" after Lex Luthor's device scrambles his frequency so that he loses his connection to Earth and has to reform on another planet. There's nothing there but non-sentient blue flora and fauna. Swamp Thing tries to keep himself sane with constructs of plant matter in the forms of his wife and other people, but this amounts to talking to himself.
On a world visited by the Exiles, Doctor Doom had created one of these, by eliminating humour in Humanity. The Exiles are torn on whether it is worth it to create a crime-free utopia.
Ra's al-Ghul's philosophy has shades of this, where he states he dreams of a world "as clean as the wind-swept dunes" he came from.
The entire premise of the movie Equilibrium is a Utopian future society created by suppressing all human emotion and anything that might stir it up—through propaganda, chemicals and Gun Kata-practicing Badass Longcoats. This removes all hate, jealousy and anger but also removes humanity's capacity for art and creativity.
This was the goal of the Alliance in Serenity: They pumped happy gas into a planet's air supply, hoping that everyone would become calm and peaceful. What they got was a planet full of death, as everyone just gave up on living, and the only survivors became horribly violent monsters.
This is the main goal of The Auditors, a group of recurring villains, they are the auditors of reality itself and dislike life and especially sentient life because it's "messy" and unpredictable.
In Wintersmith, Tiffany gets a vision of the world—frozen, silent, no death because there's no life—if ruled by the Wintersmith alone and later, the Summer Lady shows her counterpart to it, no less terrifying.
In Scott Westerfeld's Uglies series, everyone is beautiful and happy. There's no war and No Poverty. The surgery that makes everyone pretty also gives them brain lesions eliminating anger and sadness, but also creativity and independence.
In High Wizardry, Dairine's mobiles planned to do away with entropy on a universal scale, creating a Universe of Silence as a side-effect. They're persuaded otherwise when she links her consciousness to theirs, allowing them to understand the importance of human experience.
Referenced as far back as the first book in the series:
(I've lost enough friends to that one,) Fred said, (heard enough songs stilled. People gone nova before their time, or fallen through naked singularities into places where you burn forever but don't learn anything from it.)
The Giver has done away with conflict by doing away with emotions, colours, the arts, and non-human life forms.
When Rand finally confronts the Dark One, the two have a metaphysical battle imposing their visions of the world on each other. Rand creates a vision of a world without the Dark One, who is a metaphysical force of evil. At first, it appears to be a veritable utopia where people have no concept of violence and peace and prosperity reigns. As it becomes clear soon, this is only possibly because by destroying the Dark One, Rand has also destroyed the potential for conflict, however minor. Every person in the world is a vacant shell with simple minds, with no true free will. The understanding of what killing the Dark One would result in nearly breaks Rand and almost hands the victory over to him.
Two of the Dark One's attacks take this form. The first is a vision of a world which at first appears happy and prosperous, but in which conscience has been cleanly excised from the human race, such that no one feels the slightest bit of empathy or love for another, and any person will backstab another if he thinks it will help him, without feeling the slightest remorse. The second is the Dark One's idea of a compromise or bargain: if Rand will agree to stop trying to redeem the world, the Dark One will stop trying to corrupt it and will simply unmake everything.
In the backstory of "The Return of the Archons" and "The Apple", mind control/brainwashing was used to make the population docile and happy.
''What Are Little Girls Made Of?": An android decided to Kill and Replace all humans with androids in order to eliminate negative emotions like jealousy, greed and hate. Of course, it would also get rid of positive emotions like love and tenderness.
There's no real antagonist in "This Side of Paradise", just spitting pink flowers who inflect people with spores that drain them of all real emotion or desire. Those inflected try to convince everyone else to join them in their endless garden tending, by getting them squirted as well. On the plus side the spores cure even fatal diseases, giving their hosts perfect health.
Jasmine in Angel turned people into peaceful, Jasmine-loving zombies and wanted to do it to the whole world.
The original Cybermen in Doctor Who were created with this in mind. If everyone was a Cyberman, there would be no more pain and no more loss, no wars, because everyone would think the same. The parallel-Earth Cybermen from the revival are similar; their creator's original goal was to prolong his own life, but after being converted himself he embraces the "life without pain" concept.
Cyber Controller: I will bring peace to the world. Everlasting peace. And unity. And uniformity.
Cyber Leader: You need not fear. Cybermen will remove fear. Cybermen will remove sex, and class, and colour, and creed. You will become identical. You will become like us.
In his first appearance, this was one of Davros's justifications for the creation of the Daleks. Having spent his entire life in a world stuck in a Forever War between two races, he decided that the only guarantee of peace is for one life-form to rise to the top and suppress all others. Of course, it was at least as much about him having the power to make this decision.
Helen Cutter's aim in the third series of Primeval. She is only stopped by a juxtaposition of a cliff, gravity and a pissed off velociraptor.
The "utopia" created by the Avatars in Charmed. All the adults were Stepford Smilers, and anyone who created conflict was erased from existence.
An earlier two-parter had the cosmic balance be thrown off, causing the main and predominantly good universe to become too good. It was always daytime, everyone was insufferably happy and pleasant, and even the most minor of offensives (like using your cell phone in a hospital) were punished by death or dismemberment... and having to pay a fine.
Two titan avatars from Scion, Nu and Shu, want to turn the world into nothing else but their prefer element (water for Nu, air for Shu). No creature, not even the avatar themselves, will exist, as that will disturb the stillness of their world.
In Soul Calibur IV, it's revealed that this is the kind of world that the sentient crystal sword Soul Calibur seeks. Like Soul Edge is a sword of chaos and death, seeking nothing less than a world of endless warfare, bloodshed and death, Soul Calibur seeks to freeze the world into crystalline perfection.
This is Seymour's goal in Final Fantasy X: Kill everyone, so that no one has to suffer a loss anymore. We should point out that this is not the first time that Seymour has subscribed to Insane Troll Logic.
In Tales of Symphonia, this is the Big Bad's motive to make everyone into lifeless beings so that discrimination wouldn't exist. However, it's subtly implied that he's in denial over the fact that Exspheres strip people of their emotions as he and his main followers use them with no adverse side-effects besides immortality, completely ignoring the many Mooks who are emotionless. It makes a lot more sense when you realise that deep down the Big Bad has been subjected to a lot of Fantastic Racism and his single-minded obsession over a world where everyone is equal effectively caused him to Mind Rape himself.
In Shin Megami Tensei III: Nocturne, the Reason of Shijima aims to create this world (indeed, "shijima" means "silence"). Ironically, the usually-chaotic demons absolutely love this idea as it means that every being will be equivalent to a god (almost like a universal Enlightenment).
In Shin Megami Tensei IV, the Four Archangels gently Mind Rape the people of the Eastern Kingdom of Mikado to convince them of the need to sever ties with Tokyo, which they plan to level into oblivion with a black hole. Their endgame is, essentially, erasing wisdom and knowledge (in a word, undoing the Original Sin). This would trap all remaining humans into their God-sanctioned playpen, unable to even understand there is anything beyond it. And even more extreme is the White Faction, who try to end the entire universe so that no intelligent life can exist to suffer under the wrath of God.
In Persona 4, this is the kind of world Izanami thinks the apathetic humans want.
The Fall inPersona 3 is also described to be this, where everybody save Aigis will have their psyches destroyed and all suffer from Apathy Syndrome upon Nyx's coming, eventually dying due to being unable to take care of themselves
In Arcanum: Of Steamworks & Magick Obscurathe Big Bad, Kerghan, First of the Necromancers, has seen the afterlife and describes it as "an endless sea of mirrored glass where souls go to die" and claims it is nothing but eternal, peaceful bliss. Having seen this blissful place he came to the conclusion that life, with all its pain and misery, is an abomination and it is unfair to force living souls to go through all that, which is why he wants to kill everyone. Virgil, if he has undergone the events to make peace with his past, which resulted in him being dead for a short time, will confirm that what Kerghan says is true but notes that there are also benefits to being alive. As is the standard for Arcanum, it is entirely possible to convince Kerghan that his logic is dogmatic and flawed, thereby Talking the Monster to Death.
This turns out to be the goal of the villain from Sonic and the Black Knight: to freeze Camelot in time so it will never see decay.
Infel's goal in Ar Tonelico 2. In her defense, she does think that it's the better option for the people of Metafalss. Of course, having her loverpartner Nenesya murdered right in front of her doesn't help.
In Dragon Age, this is the whole point of Qunari society and the Qun, the dogma by which they live their life by. In their society, people are known only by their occupation/role in life and cannot deviate from it. Qunari society rejects the idea of free will, and see it as their goal to "enlighten" the world via conquest. Considering the sheer number of defectors they get whenever they come in contact with other civilizations, though...
This is basically the world of Drazil in a nutshell. It's ruled by gods who believe in The Evils of Free Will and therefore try and quash all forms of individuality within their people, much like something out of 1984. All Drazillians look identical and live only to the age of 30 so that they never have to "suffer" the horrors of growing old and ugly. They all believe in a dogma of "Live for the world, die for the world". It's actually described as a "graveyard whose inhabitants just happen to be mobile", and that's not too far off either.
In Knights of the Old Republic 2, this isn't precisely the goal of Kreia. Her apparent goal (which is debated) is the total destruction of The Force. Unfortunately, life pretty much runs on The Force, so the net result would probably be the total destruction of all life in the galaxy, which would lead to this. She's aware, and doesn't care. She may have seen The Exile as proof that it's possible to live without The Force.
This trope is used by name by the Einst in Super Robot Wars. Neue Einst Regisseur is an Eldritch Abomination who believes that his role is to preserve the universe(s), and the spread of intelligent life and conscious thought is leading to its decay. In order to restore a "world of silence", he starts by trying to find a way to "purify" humans, and when that turns out to be impossible he decides to simply wipe them out and replace them with soulless Einst duplicates. That plan didn't turn out so well, either.
It is also implied that this is what the creator and leader of the Burning Legion,Sargeras, intends to do once he destroys all life in the universe and recreates the universe anew without imperfection. Tough there is no information on how the resulting universe would be.