Godzilla 2000: Millennium (1999)

Godzilla is a literal force of nature to Japan. Yuji Shinoda founded the Godzilla Prediction Network (GPN) in order to predict Godzilla's landfalls and track his movements, all the while attempting to study and preserve him. One night, Shinoda and his daughter Io are tracking Godzilla near Nemuro in Hokkaido, and are joined by reporter Yuki Ichinose, who is trying to get photographs of Godzilla for her newspaper. While the three are in their van, they receive notice that Godzilla has come ashore nearby. Shinoda drives towards Godzilla's location, but after reaching the end of a tunnel, he finds that the road is gone. Shinoda shines the van's lights up, revealing Godzilla looking down at the van. Yuki begins taking photographs, enraging Godzilla, who roars at the van, shattering the windshield. Shinoda turns the van around and drives back through the tunnel, with Godzilla chasing. After escaping the tunnel, Shinoda watches Godzilla walk towards the heart of the city. Godzilla arrives in Nemuro and destroys the city's electrical plant, to which Shinoda remarks that it's as though Godzilla is trying to destroy mankind's energy sources.

Meanwhile, Mitsuo Katagiri, head of the government agency Crisis Control Intelligence (CCI), is informed by his subordinate Shiro Miyasaka that a huge ancient rock formation has been discovered in the waters off Japan. Katagiri orders that the rock be brought to the surface, so CCI ties balloons to the rock. Suddenly, the rock begins to ascend on its own, surfacing in between several CCI ships. Scans of the rock reveal that it is surprisingly hollow, and at least several million years old. Back on the mainland, Shinoda is informed by a source that Godzilla is heading towards Tokai in Ibaraki, likely to feed on the nuclear reactors at the village's power plant. Katagiri learns of this and orders all reactors at the plant to be shut down, and mobilizes the JSDF's forces to the area. The JSDF has recently developed a new anti-Godzilla weapon, the Full Metal Missile Launcher. The missiles launched by this are supposedly strong enough to penetrate Godzilla's hide and seriously injure him. Shinoda travels to Tokai and confronts Katagiri, angry that he is so fixated on killing Godzilla rather than preserving and studying him. Katagiri mocks Shinoda, stating that GPN will soon be history, then leaves, unheeding Shinoda's warning to shut off conventional energy sources in the area as well. The next morning, the JSDF's forces are lined up on the beaches at Tokai, anticipating Godzilla's arrival. Soon, Godzilla's dorsal fins break the water's surface and he emerges from the depths. Multiple attack helicopters open fire on Godzilla, drawing him away from the power plant. Godzilla makes landfall and is fired upon by tanks, which pull back and lure Godzilla closer to the range of the Full Metal Missiles. As Godzilla reaches further inland, the Full Metal Missile Launchers open fire on him. Godzilla is visibly injured by the missiles, with chunks of his flesh flying off from the blasts. While Godzilla is blasted by the missiles, the giant rock suddenly takes flight and flies to Tokai, where it confronts Godzilla. Godzilla blasts the rock with his atomic breath, but it retaliates with a powerful laser cannon fired from a hole on its side. Godzilla and the rock exchange more blasts until Godzilla is knocked into the ocean and disappears. The rock flies away and eventually lands near the city of Kashima, with CCI quickly setting up a perimeter around it, tying it down with steel cables that produce an electromagnetic barrier.

At the site of Godzilla's battle with the JSDF, Shinoda recovers several pieces of Godzilla's flesh that were blasted off by the Full Metal Missiles. Shinoda intends to study these skin samples, but needs access to the proper equipment. Reluctantly, Shinoda approaches CCI for permission to use their equipment. Katagiri agrees, so long as Shinoda abides by all of CCI's rules and shares any information he learns, in addition to the data GPN already owns. Shinoda works with Miyasaka, who was a former friend of his in college, to observe Godzilla's cells. The two discover that the skin samples have fully regenerated all of the damage sustained earlier with no scar tissue. Using the electron microscope, Shinoda and Miyasaka discover that a substance in Godzilla's cells, which Shinoda names "Organizer G1," allows Godzilla to almost instantly heal from any damage he sustains, rendering him practically immortal. Meanwhile, scans of the giant rock have revealed that it is actually an advanced alien spacecraft, that had been dormant underwater for eons before being activated by a submarine's lights. The occupants of the craft seem to have been converted into formless quantum fluid, and there has been no success communicating with them. Suddenly, the UFO begins to stir, and the cables generating the barrier around it come loose. The UFO then takes off again, heading straight for Tokyo.

CCI deploys choppers to observe the UFO, but the UFO uses a powerful shockwave to destroy its pursuers. The UFO reaches Shinjuku and lands on top of the City Tower. By nightfall, it is discovered that the UFO is using the tower's computer systems to hack into all of Tokyo's computers and steal their data. Katagiri orders that the ship be destroyed by planting and detonating Blast Bombs on the tower's top floor. Suddenly, the UFO begins changing the percentage of oxygen within the surrounding air. The charges are placed, and by 9:10 are to be detonated. Yuki Ichinose, unaware of the impending detonation, goes to the tower and uses the computers to try and find out what the aliens are after. Shinoda and Io arrive to get Yuki out of the building, while Shinoda volunteers to stay behind and finish downloading the aliens' activity. Yuki and Io reluctantly leave and ask the nearby soldiers to delay the blast. The soldiers report to Katagiri, who coldly tells them to proceed as planned. Just before the detonation, Shinoda sees the word "MILLENNIUM" displayed on all the computer screens. Katagiri presses the detonator despite Miyasaka's pleas not to, and the Blast Bombs explode. The UFO is not damaged by the explosion. The aliens broadcast a message across all electronic devices, stating that they intend to conquer the Earth and start a "thousand-year empire," as the UFO releases a shockwave that demolishes the rest of the tower. Shinoda survives by sliding down an elevator shaft, and reunites with Io. Shinoda, Io, and Yuki reach the rooftop where Katagiri is, where Miyasaka runs to embrace him. Shinoda sardonically tells Katagiri "Somehow, I managed to survive," then shares the data he retrieved. He reveals that the aliens intend to alter the Earth's atmosphere to a condition more favorable to them, and are trying find ideal genetic material to allow them to regain their original forms, and that they have determined Godzilla to possess this ideal regenerative gene.

Just then, Godzilla emerges from Tokyo Bay and comes ashore, intent on getting revenge on the UFO. The UFO creates tentacles that erupt from the street and attack Godzilla, but he destroys them with his atomic breath. The UFO attempts to ram Godzilla and knock him down, but he continues to fight. Finally, the UFO uses a shockwave to collapse a skyscraper onto Godzilla, burying him under rubble. While Godzilla is incapacitated, the UFO absorbs his DNA, transferring it to its occupants. After absorbing Godzilla's DNA, the UFO's occupants take a single collective form and emerge from the ship. The Millennian roars as it adjusts to the surface, but suddenly begins to convulse. The Millennian begins to sprout growths all over its body, and slumps over, mutating rapidly. Shinoda realizes the Millennian cannot fully separate Godzilla's genome from the Organizer G-1. Godzilla erupts from the rubble and blasts the unmanned UFO with his atomic breath, blasting it in half. As Godzilla stares at the UFO's burning wreckage, he is shocked to see something emerge from behind it: Orga, the result of Godzilla's DNA corrupting and mutating the Millennian. Orga looks at itself, trying to understand what it has become, but is attacked by Godzilla. Godzilla and Orga exchange blows, but every bit of damage Godzilla inflicts is regenerated instantly by Orga. Godzilla charges his atomic breath, but Orga telepathically summons the remains of the UFO to take the blast, destroying it. Orga bites Godzilla on the arm, draining more of his genetic material. As Orga absorbs more of Godzilla's DNA, it begins taking on more of his characteristics, like green scaly skin. Godzilla blasts the unprotected Orga with a powerful blast of atomic breath, causing it to erupt in flames. As Godzilla stares into the inferno, he is shocked to see Orga emerge from the fire. As Orga approaches Godzilla, its gruesome injuries are regenerated right before his eyes. Godzilla begins to understand what Orga is trying to do, and when Orga unhinges its jaw, Godzilla runs headfirst into the beast's maw. As Orga swallows Godzilla whole, it begins to grow in size and sprout Godzilla's characteristic dorsal fins on its back. Suddenly, Godzilla begins to glow hot orange, releasing huge amounts of heat. When Orga realizes this, it's too late, as Godzilla unleashes a huge atomic shockwave that destroys Orga's entire upper body in a fiery explosion. After the explosion, Godzilla stands up and roars at Orga's headless corpse, which falls to the ground and crumbles into dust. Yuki finds irony in the alien's death, as it was both reborn and destroyed through Godzilla.

Godzilla approaches the rooftop, causing everyone except Katagiri to run inside. Katagiri lights a cigarette and remarks that he has never seen Godzilla this close before. Godzilla scowls down at Katagiri and places his hand on the roof. Katagiri stares fixated at Godzilla, and punches Shinoda when he tries to take him to safety. Katagiri then shouts Godzilla's name, to which Godzilla responds by destroying the rooftop and sending Katagiri falling to his doom. Godzilla turns away and walks back to the heart of the city, where he begins rampaging. The others who survived continue watching in awe. Miyasaka acknowledges Godzilla emerged out of science progressing the wrong way. Yuki replies that humans made him the way he is, prompting Shinoda to suggest that "Godzilla is inside each one of us," as Godzilla unleashes his atomic breath in a destructive swath across the city.