Becky notices that Ichijo has been acting stranger and more aloof than usual. After recruiting Hibiki Watanuki and the Intelligence Club to find out the situation, Class 1-C comes to believe that Ichijo is trapped in a forbidden love and they rush to find her.
It turns out that the alien captain purchased a cell phone and has been in secret relationship with Ichijo.
It's never shown on camera, but Ichijo does something to the Intelligence Department that causes them to go into an emotional breakdown.
While Class 1-C searches for Ichijo, the show's presentation resembles a JRPG with dialog trees, stats and chibi versions of characters naviating a world map.
A mysterious organization shows up and tries to kill Ichigo and the alien captain using some type of satellite laser weapon... while Class 1-C follows in an attack helicopter... provided by the principal.