"Silent Möbius" is set in a futuristic Tokyo in the year 2023, where humanity faces threats from interdimensional beings known as Lucifer Hawks. These malevolent entities seek to invade and conquer the human world, exploiting advanced technology and supernatural powers. To combat this threat, the Attacked Mystification Police (AMP) is formed, a specialized unit composed of women with unique abilities. The AMP operates under the leadership of Chief Rally Cheyenne, a determined and resourceful commander who oversees the team's missions.

The series primarily focuses on the AMP's efforts to protect Tokyo from the Lucifer Hawks while unraveling the mysteries surrounding their origins and motives. The team includes Kiddy Phenil, a genetically engineered warrior with immense physical strength; Katsumi Liqueur, a sorceress with powerful magical abilities; Nami Yamigumo, a skilled hacker and tech expert; Yuki Saiko, a psychic with telekinetic powers; and Lebia Maverick, a half-Lucifer Hawk hybrid struggling with her dual nature. Each member brings distinct skills and personal struggles to the group, creating a dynamic and multifaceted team.

As the story progresses, the AMP uncovers deeper connections between the Lucifer Hawks and humanity, including the revelation that some members of the team have personal ties to the conflict. The narrative explores themes of identity, sacrifice, and the blurred line between good and evil, as the characters confront their own pasts and the moral complexities of their mission. The series also delves into the political and social ramifications of the AMP's actions, as they navigate alliances with other organizations and face public scrutiny.

The plot is driven by a mix of episodic missions and overarching storylines, with the AMP battling increasingly powerful Lucifer Hawks while uncovering secrets about their own origins and the true nature of the interdimensional threat. The series balances action, mystery, and character development, culminating in a climactic confrontation that tests the limits of the team's abilities and resolve. "Silent Möbius" presents a compelling blend of science fiction and supernatural elements, offering a detailed exploration of its world and characters within a high-stakes narrative.