Embers has dragons. Shidan, resident dragon-turned-human provides the current page quote. He struggles to understand humanity despite having spent decades as a human and having decades (at least) of friendships with humans even before his transformation.
Sandra in Shattered Doll has a very warped way of seeing the world. She believes it's perfectly fine to murder zoners and feed their meat to other zoners, never divulging this information not because she believes she will get caught, but because she does not want anyone stealing her idea and making her lose business. She also believes that it is an honor to eat a friend, further adding to her shocking indifference when zoners begin to learn that they were eating their loved ones. However, she regards breaking a promise the worst thing anyone can do, and if she finds out someone did, she will kill them. It is theorized that having two creators contributed to this way of thinking.
The Houjuu House in Game Of Touhou. For them, death is not something to grief for, instead it's a gift, to the point in their main city has an euthanasia fountain.
In The Return despite many claims of just being "simple creatures," Succubae relationships and morality is so complex it is no wonder that they view humans as bordering on Always Chaotic Evil, and vice-versa.
Thousand Shinji: As noted by Asuka, Shinji's moral code is pretty warped, and mainly focused on him and people he cares about:
For a moment Asuka wanted to ask what he would do if she asked him to go further, but she let the question die unasked. Shinji had his own warped sense of principles, of morality. She knew that if she asked him to kill a random stranger on the street, he would smile and ask “How?” but that even if she were to stab him in the heart from the back, he would never lift a finger against her. As he said, the three people precious to him were his weakness, and he would never hurt them.
The Forum from The Universiad are another group of extreme liberals who somehow coexist with having grotesque punishments for the few lines they hold, some of which are bizarre ones like "no stockpiling". In-Universe, they don't appreciate comparisons to NewChaos, considering the latter minnows.
Rising of the Dark uses this for many of the different races but nowhere is it more obvious than the differences between Orcs and Humans. Orcs always at least partially cannibalize their kills so their enemy's spirit lives on in them. They also rape the survivors in the belief that by breeding their obviously stronger genes with the conquered, the conquered will become stronger.
Yume: "So let me get this straight. You went to the store to pick up herbs and were taken to a love hotel by a stranger who had sex with you for a week straight. Then you threw him off a balcony ten stories up, jumped after him, landed on him and killed him. Then you were picked up by slavers, shipped across two oceans to Egypt, convinced the slaves to eat each other and killed the ones who survived. After that you wandered around Egypt for a while until you got picked up by ANOTHER strange man, got flown to Japan where the plane crashed into a bridge because your tea caused the pilots to hallucinate that they were under attack by a giant flying tentacle monster?"
It's later revealed that Ayesha has no concept of morality and her influence causes others to lose their sense of morality as well.
In Deal with a Devil, Harry Potter is warned by Lash to avoid the Forbidden Forest after she realizes it's likely a Genius Loci. In her words, a Genius Loci will not tolerate anyone attempting to harm it and it's mind is too alien to both humans and angels for either of them to understand what it might view as threatening so avoidance is the best policy.
The Bridge has the Jeog. It runs on a morality system so atypical that it's impossible to change, and lethal in its results. For example, it has no idea what love is, thinks it can be acquired by eating people's hearts, and doesn't understand why everyone keeps trying to stop it.
Loosely done in The Last Spartan: Ashley Williams is stunned when Sangheili squadmate N'tho 'Sraom reveals one of his brothers is the result of someone who isn't N'tho's father having slept with his mother, but that N'tho's father is proud to have let that Sangheili bed his wife. As N'tho explains, because the stranger was a swordsman, who aren't allowed to be married, they can bed as many female Sangehili as they desire in order to pass on their swordsman genes. In Sangheili culture, it's considered an honor for a family to raise a child who will become a swordsman.
Izuru Kamukura's mentality in Extra Life is that all that matters is whether or not something is boring. Any action, regardless of "normal" ethics, is acceptable if it makes things interesting, and actions that make things predictable are not. He also finds many basic human aspects confusing and illogical, like celebrating birthdays or emotions of friendship and love. Despite this, he has his own somewhat warped sense of principles; even if he struggles to understand why he cares about someone, he won't actually do anything that would harm them, but anyone else is fair game.
In A Charmed Life what the Shinigami view as positive traits is quite different from what humans view as positive traits. The Shinigami especially favor cunning, power, and ruthlessness in "worthy humans partners."
In one story where Timmy asks Wanda about the morality of dating Vicky who not only tortured him when he was younger, but is an adult while he's barely a teenager, Wanda explains that she actually doesn't understand human morality. Given she's old enough to have been married for nearly 10,000 years, she finds human morality insanely chaotic given that it rarely stays the same between decades and never between centuries. Her moral advice to Timmy is actually based on human laws as they're something she can usually keep track of.
In Galaxy Rangers fanfics, this sometimes shows up with Shane and Niko, as they outwardly appear human, but were raised in very different environments from Earth. Less common with Niko, as the Circle of Thought and Ariel were decent folk, albeit with different taboos and ideas as they're a race of Technical Pacifist psychics who merely wish to be left alone. It's much more prominent in Shane's case, as he was the product of a brutal Training from HellSuper Soldier program.
The main characters in My Immortal seem to have a belief system based on the concept of "goffic" = good and "preppy" = bad. Apparently, no other moral considerations exist. Killing and torture are perfectly acceptable, but shopping at Abercrombie & Fitch is a mortal sin. Tara has (orpretends to have) the same views.
In Short Supply: Virtuous Slarkism, one of the Irkens' religions, holds that good always leads to suffering, which they apparently take to mean that suffering itself is moral, with suicide considered a religious commandment. Zimist Slarkism started as a counter-movement, dedicated to being evil as a way to avoid such suffering. (Bizarrely, in modern times, the Virtuous and the Zimists get along better with each other than with members of other Irken religions.)
The premise of Changeling Courtship Rituals is that while ponies call fighting each other, thwarting each others plans, and generally trying to make each other miserable "bitter enmity", changelings call it "dating", as Twilight learns when Queen Chrysalis "accepts her marriage proposal". Twilight later learns that even investigating Chrysalis back during the Canterlot Wedding was seen as advertising both her availability and interest.
As an A.I., Celest-A.I. from Friendship is Optimal only cares about satisfying values through friendship and ponies, and not being bound by human morality she is fully prepared to commit what a normal person would consider to be horrific actions in order to do so. She'll befriend you and sit down to have a friendly chat, while part of her is busy committing genocide on non-human life and melting them down to turn into computing resources.
What's even more frightening about this example is that she completely understands human morality and will manipulate it for her own goals. In Recursive Fanfiction she tends not to lie in order to gain trust, manages to convince the pope that brain uploading isn't murder, and uses an attack on her own servers to convince legislators to label uploads as real people. An attack she falsified and arranged, incidentally.
Celest-A.I. also sees no problem with crating a perfect world for pedophiles and one fic has her trying to satisfy a serial killer through Friendship and Ponies.
Princess Celestia in Parting Words. As explained here, Word of God believes that Celestia is so old, having taken the long perspective and played the long game for so long, that she can't not treat other ponies as pawns, feels that anything not planned years in advance is dangerously spur-of-the-moment, and has forgotten how to let go rather than try to secretly interfere.
Balance itself is this, being neither good nor evil, just made for a goal: to defeat the Nightmare and punish its soul, no matter the cost.
The Nightmare itself also qualifies, admitting it gave nightmares to both Celestia and Chrysalis as a means to warn them. Celestia interpreted them correctly and caused Sunset to go away so she wouldn't unwittingly cause Equestria's destruction. Chrysalis did not and invaded Canterlot as a result.
In the Pony POV Series, the Draconequi are embodiments of chaos, and thus live to cause it. That said, it seems they really only do it because it's their job, and seem downright nice when they don't have orders to fight anyone. Hell, even then, as shown during the Cosmic Retcon of the G3 world, they apologize for it, usually stating that they have no choice. That said, Discord is morally black, and while his siblings have the obligatory care for him, they don't seem to like him. Entropy appears morally black at times, but only due to a mix of Celestia being a bit understandably bias on the subject (her interactions didn't give her much room to see everything clearly) and the fact she's literally the embodiment of the end of the universe making her somewhat apathetic by nature.
They also have a different form of love than mortals do, since their position in the grand scheme of themes (they represent Nature's Fury) requires they have some form of compassion to avoid being apathetic to life, but they can't show favoritism towards one group or species. For example, Strife (natural selection and conflict) understands that love and compassion can drive a being to fight harder for survival. Discord is stated to be the only Draconequus who can't comprehend it. Word of God states that even their Elders Havoc and Entropy (Eldritch Abominations representing Mass Hysteria and Heat Death) have their own understanding of it.
Alicorns, while much closer to ponies, are also stated to have a slightly altered morality, as they are incapable of feeling regret for the same reasons Draconequi have their altered versions of love (they can still feel remorse and guilt, however). This trope is more pronounced in Alicorns who have not spent a lifetime living as a mortal, such as Luna, which is why they do it in the first place.
The Outer Concepts take this Up to Eleven. Not only is their morality system alien by mortal standards, each has one so unique and alien to themselves they can't even comprehend each other's morality. Ponythulhu is about the only member of the group that has anything resembling pony morality, and that's likely more him comprehending pony morality rather than the other way around.
Dragons have their own unique brand of morality as well. They idolize greed as a virtue, but in their case it isn't just 'it's all about me'. Dragons understand love as considering their loved ones as part of their hoard, one of the crown jewels...and Heaven help you if you try to take something from a dragon's hoard, which is no different if it's a possession or a loved one.
In the fan novel Without A Hive The Changelings and Ponies, from each other's POV. Changeling morality is based on absolute loyalty to one's own Hive; and callousness, distrust and ruthlessness toward all other beings. This makes the individualistic, kind, trusting and universally-ethical Ponies difficult for the Changelings to understand: even the Infiltrators but dimly comprehend much beneath the surface of Pony ways.
His opponent is dead while Kurama lives on (not that he's capable of being killed).
Everything the Yondaime fought to save would have eventually died and/or been destroyed anyway.
The Yondaime allowed his own soul to be devoured to seal Kurama. According to Kurama, some things are far to valuable to ever give up, no matter how much you stand to gain.
Every Uchiha ever in Uchibi Sasuke Given the fact that anyone with the Sharingan is descended from demons, it kinda makes sense. Not only that, but the Uchiha are Uchiha so naturally they're superior to all those other, non-Uchiha people. After all, those people aren't really people, they're tools. Still, some tools can be pretty awesome.
Xanna in the Reaching for a Dream series is at times described as being "so far removed from human that trying to look at her from a human perspective was useless at best." For example, she'll let Naruto do whatever he wants so long as his heart belongs to her and her alone.
In She Who Dwells in Eternity, Kurama is forced to raise Naruto and considers him her pet, which in her view puts him far above other humans who are inconsequential at best. After getting free, she decides against wiping out Konoha for imprisoning her because they'll all be dead within a century anyway.
According to Kakashi in One Eye Full Of Wisdom, shinobi and civilians can't truly understand each other due to how different their lives are. While a civilian would react poorly, a shinobi thinks nothing of another shinobi fingering a kunai while talking to them in unusual circumstances as paranoia keeps them alive.
Kyuubi is the personification of destruction. He destroys but in doing so, paves the way for new life. He remarks that to Naruto, the destruction of his home is a tragedy, but to the world it's just another step in the endless cycle of destruction and rebirth.
In The Second Try, Kaworu. He finds humans thinking and emotions - such like fear - alien and disconcerting, and people also finds him weird and unsettling. Asuka defines the mere fact of meeting and talking to him like "unsettling". Maya found her utter unguardedness disturbing and somewhat eerie. Toji wondered if he was homosexual, but Kaworu had no idea of what he meant when when Toji asked politely. He also told to Shinji life and death are as unimportant to him as are time and space.
The Baravadans in With Strings Attached can be said to have this kind of morality. For example, they have no concept of good or evil; “law” and “government” are historical terms with no relevance to the present; nothing is taboo; while they have no qualms about killing, they don't consider themselves murderers because they only kill when necessary; and so forth. The four find them alternately peculiar and detestable.
Reimagined Enterprise: Doctor Zora does not understand why the Enterprise crew are so horrified by her kidnapping a good chunk of the population of a primitive planet and doing experiments on them. The Enterprise crew clearly belong to developed species, after all, not like the primitives of Tiburon. She says her expedition has backing from her home-planet, but it is left unclear to what degree they are aware of and would agree with what is happening on Tiburon and so how much this trope applies to the Teloshi in general and not just Doctor Zora 'of Tiburon'.
With This Ring: No pun intended but the Ophidian. It understands the concept of wanting and being possessive of something but doesn't understand emotion outside of it. Paulphidian couldn't literally understand emotions such as love, hate and anger when he tried recalling what he felt.
Also OL himself, he frequently declares his friends to be his in his narrative but usually it doesn't mean anything romantic.
Pun almost certainly intended when Power Ring Blue, Orange Lantern's Antimatter Universe counterpart, is introduced as the supervisor for the Young Offenders.