If you're looking for similar to Aegis, you might like these titles. All recommendations are made by Anime-Planet users like you!
The island of Ilegenes has made huge technological advances in the fields of cybernetics and genetic modification, earning it the nickname the "Genetic Sodom" for veering so far off the path of nature. These technologies are easily available to the wealthy through the thriving black market, which not even the government has the power to oppose - a fact that the young Fon Fortinbras Littenber is made keenly aware of after his parents are murdered for expressing anti-cloning sentiments. Now, the boy attends an elite military university, where he plans to work his way up through the system in order to re-structure the corrupt government and destroy the black market. But despite his hatred of cloning and human modifications, his impossible eye color and aptitude at academics and sports lead the other students to suspect that he is actually a modified human...
Ilegenes and Aegis are sci-fi manga that take place in a dystopia in which the military have taken control. The cast consists of pretty boys caught in a world rife with injustice. In both cases a very strong bond develops between two boys; Aegis steps into actual shounen-ai territory while Ilegenes veers very close to it.
Sion is intelligent, highly educated and lives a privileged life within the walls of No. 6, one of six city-states that was built after the world was destroyed from war. But Sion's comfortable existence changes forever when he meets Nezumi, an escaped convict, on the eve of his twelfth birthday. Due to his assistance in keeping Nezumi safe, Sion loses his rights and is forced to live in the lower town, where he becomes a normal citizen. Four years later, Sion finds himself back in Nezumi's company and in the midst of a dangerous conspiracy that leaves a trail of bodies in its wake. What is really going on in No. 6?
No.6 and Aegis take place in a dystopic world and feature boys who rebel against it. They are akin in their solid world building and dark themes without shying away from distubing content.
No.6 is more consistent in tone while Aegis lapses into light hearted moments despite being equally dark but they are true soulmates in the thoughtful way in which male/male relationships are handled. These manga surpass the frequent limitations of the shounen-ai genre to produce credible and multilayered homosexual relationships.