An independent group of researchers actively track Godzilla as a giant meteor is discovered. The mysterious rock begins to levitate as its true intentions for the world and Godzilla are revealed.
Japan creates an artificial black hole device to trap Godzilla forever, but a test of the device creates new foes for Godzilla, car-sized dragonflies called meganula and their queen, Megaguirus.
A reporter, notorious for working on pseudo-documentaries, must uncover the legend of the three guardian monsters who must rise to defend Japan from the vengeful spirits within Godzilla.
A new Godzilla causes the JSDF to construct a cyborg countermeasure from the original monster's remains. The beast's restless soul is discovered to inhabit the machine as the pilot must learn to find value in her own life.
Mothra and her fairies return to Japan to warn mankind that they must return Kiryu to the sea, for the dead must not be disturbed. However Godzilla has survived to menace Japan leaving Kiryu as the nation's only defense.
Godzilla's fiftieth Anniversary project, in which Godzilla travels around the world to fight his old foes and his allies plus a new, mysterious monster named Monster X.