What anime challenge traditional notions of morality and ethics, and what philosophical questions does it raise about the nature of good and evil?

"My Life as Inukai-san's Dog challenges traditional notions of morality and ethics by centering around the idea of a human being transformed into a dog including the moral dilemmas and ethical questions that arise from this transformation. One of the main philosophical questions raised by the concept of this Anime is the idea of whether morality is inherent or dependent on one's physical form. Does turning into a dog change one's moral compass or does it reveal one's true nature? How does the transformation affect the individual's relationships with others and how do others perceive and interact with the transformed individual? This raises complex philosophical questions about the nature of good and evil, morality, identity and societal norms, challenging traditional notions and prompting viewers to reconsider their beliefs and assumptions about these concepts."

Happy Sugar Life does not count in challenging typical notions of morality as the show makes it quite clear that its lead character, Satou, is a sociopath who has kidnapped, imprisoned, and groomed a 8 year old child to be in a “romantic” relationship with them. Rather, it (sort of) challenges the audience to understand Satou and her twisted rationale. It does not so much raise philosophical questions on good or evil so much as it tries to characterize the latter in all too human terms. It is more psychological than philosophical.

Naoki Urasawa’s Monster is a bit more philosophical regarding Tenma’s struggles over reconciling his guilt of saving a monster and what role do doctors have in enabling the actions of others. Should doctors play god, both over life and death? Monster is more of an ahistorical psychological thriller drama, but this question does hang over the head if Dr. Tenma as he pursues Johan. The other question it asks is whether pure evil exists, and where does it arise from. Is Johan actually pure evil? I think it has too many episodes, but I do not know if I agree with Tenma in the end. (I should honestly start Pluto too)

Speaking of which, Oreimo challenges the societal taboo of not fucking your imouto. After all, is not incest just a more viable take on the childhood friends trope?

Trigun also veers into this territory between the pacifistic Vash and his brother the misanthropic Knives.

Attack on Titan challenges the very nationalism we're taught to celebrate and demonstrates how moral relativism is a garbage justification in ethics—in my opinion, just off the top of my head

Happy Sugar Life does not count in challenging typical notions of morality as the show makes it quite clear that its lead character, Satou, is a sociopath who has kidnapped, imprisoned, and groomed a 8 year old child to be in a “romantic” relationship with them. Rather, it (sort of) challenges the audience to understand Satou and her twisted rationale. It does not so much raise philosophical questions on good or evil so much as it tries to characterize the latter in all too human terms. It is more psychological than philosophical.

Naoki Urasawa’s Monster is a bit more philosophical regarding Tenma’s struggles over reconciling his guilt of saving a monster and what role do doctors have in enabling the actions of others. Should doctors play god, both over life and death? Monster is more of an ahistorical psychological thriller drama, but this question does hang over the head if Dr. Tenma as he pursues Johan. The other question it asks is whether pure evil exists, and where does it arise from. Is Johan actually pure evil? I think it has too many episodes, but I do not know if I agree with Tenma in the end. (I should honestly start Pluto too)

Speaking of which, Oreimo challenges the societal taboo of not fucking your imouto. After all, is not incest just a more viable take on the childhood friends trope?

Trigun also veers into this territory between the pacifistic Vash and his brother the misanthropic Knives.

Not much similar, Flare is an evil rapist and who drugged Keyaru to make him an obedient slave.
Poor guy really, he even gets vilified by SJWs for taking revenge on her after turning the tables.

@JessicaKari I think challanges more then that, from morality, idiologies and even values, AOT challanges everything.

I could see clothing representing individualism in some way but really clothing is also used to show conformity so there also was a clear message against conformity and obedience to authority.