An eccentric guest lecturer, Mr. Higsby, has come to Lan's school. But the lesson he wants to teach isn't on the cirriculum! The nutty professor is on a quest to ""acquire"" all rare BattleChips from those he deems unworthy. His target... Yai. Using his NetNavi, NumberMan, Higsby takes over the school's control system and locks Yai, Ms. Mari, Dex, and Maylu in their classroom, then stages a lopsided NetBattle to obtain his precious prizes. Locked outside, Lan must find a way to send MegaMan to the rescue... before it's too late!

The wildly popular TV personality and Yoga master, Yahoot, is in cahoots with World Three! The menacing mystic uses his powerful NetNavi MagicMan to take over the airwaves and hypnotize the devoted viewing audience--turning the entire town into animals! MegaMan jacks in to confront MagicMan, but things get pretty tricky. Our hero is outmatched by the nasty Navi. Just when MegaMan is about to receive the final blow, ProtoMan, controlled by the mysterious champion NetBattler Chaud, comes to his defense, and takes down MagicMan!