Federation trooper Johnny Rico is ordered to work with a group of new recruits on a satellite station on Mars, where giant bugs have decided to target their next attack.

Lieutenant John Paxton wants revenge against the government he and his men swore their lives to defend. The very government that abandoned and betrayed him, leaving him to die after a secret biological warfare experiment went horribly wrong. John will discover revenge is a journey that will ultimately leave millions infected, countless dead, and the lucky few survivors struggling to find the last safe corner for humanity.

A distant Federation outpost Fort Casey comes under attack by bugs. The team on the fast attack ship Alesia is assigned to help the Starship John A. Warden stationed in Fort Casey evacuate along with the survivors and bring military intelligence safely back to Earth. Carl Jenkins, now ministry of Paranormal Warfare, takes the starship on a clandestine mission before its rendezvous with the Alesia and goes missing in the nebula. Now, the battle-hardened troopers are charged with a rescue mission that may lead to a much more sinister consequence than they ever could have imagined….

The film centers on Asuna, a young girl who spends her solitary days listening to the mysterious music emanating from the crystal radio she received from her late father as a memento. One day while walking home she is attacked by a fearsome monster and saved mysterious boy named Shun. However, Shun disappears and Asuna embarks on a journey of adventure to the land of Agartha with her teacher Mr. Morisaki to meet a Shun again. Through her journey she comes to know the cruelty and beauty of the world, as well as loss.

In the latter part of World War II, a boy and his sister, orphaned when their mother is killed in the firebombing of Tokyo, are left to survive on their own in what remains of civilian life in Japan. The plot follows this boy and his sister as they do their best to survive in the Japanese countryside, battling hunger, prejudice, and pride in their own quiet, personal battle.