There has been a worldwide outbreak of kaiju disasters, and now a 50-meter-class space kaiju has appeared. Gento Hiruma leads a special unit to stop the advance of the kaiju, but they get stuck in a desperate situation. Gento rushes to save his men, but that's when the Blazar Brace appears on his left arm. Led by the light, Gento transforms into Ultraman!

Gento, with Bazanga's defeat under his belt, is appointed by GGF Command's Chief of Staff Retsu as the captain of the newly established SKaRD (Special Kaiju Reaction Detachment). Gento goes to meet the members of his team. The members he meet, Emi, Teruaki, Anri, are all one of a kind... That's when news about the emergence of Gedos comes in. They don't have all the members assembled, nor do they have all their equipment yet, but SKaRD's first mission is beginning!

SKaRD finally welcomes the last member, Yasunobu, who had been involved with the development of the new weapon, Earth Garon. Now with the whole team gathered, they begin to train against kaiju.

In the midst of this, they are informed of a mysterious phenomenon occuring around the world. Storage tanks with new energy sources are being emptied over night...

SKaRD believes that this is caused by a kaiju and deploys Earth Garon to the field for the first time.

The kaiju, Deltandal, is demolishing the city as it flies through the skies at Mach 9. Because Earth Garon cannot keep up with Deltandal's speed, SKaRD is unable to catch it. Meanwhile Emi finds out confidential information on the GGF labeled "V99" about space kaiju such as Bazanga and Gebalga. It seems to be related to a certain experiment that was conducted in the past.

Varallon reaches the moon, dropping bombs one after another. If this persists, it will alter the moon's orbit, leading to catastrophic consequences for Earth. Command directs SKaRD to deploy to the moon in the Earth Garon Mod.4 to eliminate Varallon. A desperate space battle unfolds.

Blazar and SKaRD face defeat in their battle against Varallon on the moon. Meanwhile, Emi is captured by Dobashi. In a dire turn of events, Varallon descends to Earth. Adding to the mystery, there's an appearance of a mysterious fleet of messengers. What will be the fate of SKaRD and Earth Garon's battle? What truth does Emi discover? Will Gento and Blazar be able to protect Earth?