Upon arriving at the hidden headquarters of the League of Extraordinary Elects (the L.X.E.), the Alchemist Warriors learn of the League's plot to attack the high school. Kazuki and Tokiko immediately head over there only to discover that the school has been surrounded by Doctor Butterfly's newly created humanoid homunculus soldiers. To the Alchemist Warriors' surprise and dismay, they find that not only are they facing Doctor Butterfly's minions, but the students of the school as well!
- Chapter 37: Items of the Same Type
- Chapter 38: A Friend of Everybody
- Chapter 39: The Power Gushing Out
- Chapter 40: A Sign of Death
- Chapter 41: Papillon Vs. Butterfly, Part I
- Chapter 42: Papillon Vs. Butterfly, Part II
- Chapter 43: Who Are You?
- Chapter 44: The Pulse Quickens
- Chapter 45: A Spring Night of Two Months Past