Refueled and restocked, the remaining Eishi attempt to restore communication and warn the US of the BETA invasion. Meanwhile, Major Christopher and Lieutenant Sandek begin initiating plans of their own.
The Refugee Liberation Front continue their takeover as Yuuya and the other uncaptured test pilots attempt to get to their TSFs and reclaim control of the base. Meanwhile, lieutenants Sandek and Dogulu plan to counter the invaders.
With rivalries intensifying between the nations participating in Blue Flag, the brass decide to send the Eishi on a backpacking trip through the wilderness. Romantic jealousies and a hot spring ensure that this will be a steamy outing.
Yuuya’s troubled military past, the reason his former flight mate bears such a grudge for him, is finally revealed. Reflecting upon his past, Yuuya begins to come to terms with how he has grown as a person since joining Argos flight.
With the Blue Flag exercises in full swing, Cryska and Lt. Cui struggle with their feelings for Yuuya. International rivalries serve as the backdrop as complicated romance and revelatory memories take center stage.
With Zhar Battalion gone and the attacking BETA exterminated, Argos flight finally enjoys a bit of peace. This respite is threatened, however, by a new military exercise and the introduction of the mysterious Chinese lieutenant, Cui Yifei.
Yuuya's TSF is in critical condition and unable to fly when the Zhar Battalion arrives in the nick of time to save him. Things become complicated, however, with the unexpected arrival of Laser Class BETA.
The BETA have broken through the front lines of defense and things are starting to look bleak. Stuck between a rock and a hard place, Yui decides to destroy the new weapon before it falls into the wrong hands.
As a grand swarm of BETA is heading towards the Soviet Base, the Captain commands that all personnel evacuate and leave everything behind. Yui realizes that the evacuation is a ploy for the Soviets to get their hands on the new weapon.
Having trouble mastering the Japanese Tactical Surface Fighter, Yui tries to console and give advice to Yuuya. As Argos Flight Team goes into their next exercise, Yuuya takes Yui’s advice to heart and learns a valuable lesson.
Earth has been hit hard by the BETA invasion. All the best pilots from all over the world meet at a new base in Yukon, Alaska, to start a new mission: Argos Flight Team (Case 47). Training starts immediately.
It's trial by fire as the girls must go into battle before they're totally trained. BETA have invaded from Mars and the girls might be in over their heads as they try to protect Kyoto from such evil beasts.