The narrative features several major plot twists across the first season:
- The Frame-Up and the "Angel": Regto was not killed by a random slum dweller; he was executed by a mysterious celestial figure ("The Angel"), revealing that the Sphere deliberately targets individuals harboring knowledge of the old world.
- Amo and the Tower of Penta: The Lady of Penta arc ends in heartbreak; Amo's seemingly deranged demeanor was the byproduct of severe abuse, manipulation, and imprisonment by figures exploiting her Instrument's hallucinatory capabilities.
- The Watchman Series & Rudo's Gloves: Rudo's gloves ("3R") are not standard Vital Instruments; they are one of the five legendary pieces of the "Watchman Series" forged to regulate the border between the heavens and the Ground.
- Season 1 Finale Climax: In Episode 24, Zodyl's infiltration deepens as he attempts to recruit Rudo. Rudo rejects Zodyl's nihilistic genocidal plans. The closing scenes reveal Rudo's ancestral connection to Canis Surebrec, setting the stage for a cross-world war in the upcoming season.