Prozen finds the remnants of legends about an apocalyptically powerful Zoid, the Death Saurer, and attempts to clone it. However, Prozen announces that the prince is dead, seizing control of the Empire for himself. His attempt is foiled by the bandits Rosso and Viola, who kidnap the prince for ransom. The war is stopped when the Empire's crown prince Rudolph orders a ceasefire, but Prozen refuses to give up on conquering the Republic and attempts to assassinate the prince. Similarly, the sizes of some Zoids, particularly the Ultrasaurus and Death Saurer, were scaled up dramatically.
Certain Zoids are a lot rarer than they are in the battle story.The 'Guardian Force' never appears during the Battle Story.No mention of the Zenebas Empire or the Dark Continent of Nyx is made, although Prozen does imply in passing that other continents exist. Both the Guylos Empire and the Helic Republic are based on the Central Continent.The event that wiped out the Ancient Zoidians was not the destruction of Zi's third moon by a comet, but the creation of the Death Saurer. The Zoidian race, known as the Ancient Zoidians in the anime, were wiped out long before human colonists discovered Zi.Although there are many similarities between Chaotic Century and the 'New Battle Story' accompanying the New Japanese Release, the two storylines are considered to be inherently different, and are believed to occur in alternate continuities.