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Outline of the story.
The entire ordeal surrounding Earth Final Conflict is believed to have begun millions of years ago. When a colony of Atavus were formed seperate from the Atavus homeworld. The Atuvus did not know then that they needed to be on their homeworld. This colony were forced to adapt. This race became known as the Kimara. They developed a vestigel organ which nourished them in place of the Atavus cleave. The Kimara then developed the ability to control this vestigal "Shaqaravah."
Eons later Howlyn, the son of the leader of the main line of Atuvus. Led a rebellion against his father. The two sides reached a stalemate but Howlyns father still controlled the homeworld. Howlyns supporters were forced to flee.
Howlyn went about conquering worlds across the galaxy. But over time these Atavus began to die off because they did not have the nourishment of their homeworld.
Howlyn devised a plan to give Atavus DNA to other races including early humans. This would allow them to feed off of these alien races.
But not all of the Atavus wanted to feed on life. Many died. Others were brought almost unwanted salvation from the Kimara. They passed their Shaqaravah to some of the dyeing Atavus.
This line of Atavus however could not develop the ability to control the Shaqaravah as the Kimara did. This line eventually split into two factions. These factions were the progenitors of the Taelons and the Jaridians. Including the progenitor of the Taelon synod Raj'al.
After Millions of more years had passed, an asteroid field came to earth killing off most of Howlyns followers. But those in Howlyns favour were aloud into stasis chambers to survive. Most of the Atavus were left buried for 3 million more years.
The Taelons and the Jaridians came to fear that the Kimara would change their kind again. This paranoia led to the Taelons destroying most of the Kimara race. Save for Ha'gal the last of his kind who escaped in a primitive craft. With no other options Ha'gal fled for Howlyns homeworld of Earth in search of a compatible distant cousin with which to breed a new Kimara race.
Over the millennia the Taelons and the Jaridians fought a bitter war which destroyed nearly all of the races that the Atavus had created by passing their DNA to their ancestors. After millennia of war, both the Taelons and the Jaradians began to suffer from problems that they knew would lead to the death of their races. But each race was already dependent on what the other race needed to survive. Core energy. The Jaridians needed Taelon core energy to reverse their genetic problems. And the Taelons were running out of core energy. But Jaradian core energy was a sufficient substitute.
When the Taelons realise that their race is dyeing they send a Taelon scientist Ma'ael to Howlyns Atavus world of earth in search of Atavus energy to substitute their own.
Ma'ael while on earth finds Howlyns stasis chamber, he destroys the bodies of the Atavus inside and places their life energy in a central orb. Ma'ael knows that if all else fails 6 Taelons will be able to use the stasis pods to absorb the Atavus life energy and survive.
In the 21st Century on Earth, the Taelons come. Their rowing desperation over their impending extinction drives some of them to commit horrific acts in an effort to prolong their species.
While the Taelons occupy Earth Ha'gal last of the Kimara finally arrives after millions of years. Unable to find any Atavus he mates with a human to produce a Kimara human hybrid. Liam Kinkaid. Hag'al is tragically killed before he can produce more children.
Liam and his friends prove pivotal in protecting humanity from the Taelons. But by the end most of the Taelons and Jaradians die out. The last few attempt to rejoin to reform the Atavus bodies. So that the conciseness of both races can survive within the bodies. But the process does not work exactly as intended by Liam. Instead the universe in essentially reset. As the new Atavus bodies have the conciseness of the original Atavus to occupy the Stasis units are downloaded into the bodies. Now the universe is in the same place as it was millions of years ago, with a struggle between humans and the Atavus. Their are other side affects to the universe reset. For example a dead resistance fighter William Boone is resurrected. And Raj'al is reconstituted to live again.
In the end things are set right by the heroic acts of Liam Kinkaid and his ally and friend Renee Palmer.When Howlyn is killed and his supporters are returned to the Atuvus homeworld. In the end nearly all of Howlyns Atavus mutant races are gone. The Jaradians, Kimara, and Taelons are extinct, save for Liam and Raj'al.
Unless I missed something, no one bothered to explain to Boone how Lili came to live on Jaridia with Vorjak. It's unlikely that Sarah Boone had knowledge about Lili's abduction. In fact, Renee refers to Jaridia in passing conversation as though Boone is already familiar with it - - even though there is no evidence that Boone had any knowledge of the existence of the Jaridians or Jaridia during Season 1. So why would Boone just passively accept Renee's explanation about Lili's presumed fate without asking Renee what or where Jaridia is? - - not to mention inquiring how Lili ended up there in the first place, for that matter?
Renee tells Boone that Lili probably died on Jaridia "when the planet imploded." However, this is a rather sloppy way for Renee to describe it. Renee makes it sound as though the planet of Jaridia itself was physically destroyed, when we've been led to believe that the Jaridian species was destined to be extinct because the Jaridians individually combust as their life spans end. Either way, Renee should have been more clear as to what she meant.
The Atavus are the result of the Taelons and Jaridians returning to their original state. Evidently, Da'an and the Jaridian leader are literally two halves of the same individual, who split apart centuries earlier and have had to reunite so they can both survive.
When Liam and Renee find the source of the light, they discover a cavern in the mountain that has a mural of Ma'el. This mural appears to be a duplicate of the one found in Ireland in the episode "The Secret of Strandhill", including the same missing pieces.
Liam Kinkaid becomes fully human in this episode. He stops being kimerah and looses his shakaravah in order to save the Taelon race
Liam talks to Renee right after having his surveillance CVI removed and they discuss his quantum duplicate. However, he could not have been told about it yet without Sandoval knowing.
(Spoiler Alert) At the end of the episode, Sandoval extracts the embryos from the women. Somehow he extracts nine embryos from eight women.
The true reason why the Taelons have come to earth is revealed at the end of this episode
Richard McMillan that plays Julianus also appears in the 4th episode of season 1 as James Pike.
When Liam and Augur are looking at the footage of the shooter in the webcam video, Augur zooms in on the shooter. As he zooms in, the word "magnification" is misspelled "magification"
How could the Taelons possibly have recorded all these events? They'd have to have cameras EVERYWHERE!
The episode does not clearly disclose if Zo'or had killed any of the victims, even though it's insinuated that he might have.
Zo'or is going through the ka'ath'am, the Taelon reproductive cycle in this episode, common reactions during this time are dreams, blushing and energy spills.
At the beginning of the episode, when Augur is showing the computer display to his friend, the word "interdimensional" is misspelled "interdimentional."
This episode establishes that the show is not set in the 1990's
In this episode Liam Kincaid becomes the leader of the Resistance
Beckett discovers that Liam is her son.
We discover that Da'an knows that Liam is the son of Ha'gel, and therefore part Kimera. He appears to be keeping this knowledge from the Taelon Commonality.
We learn that Ha'gel first seen in The Joining is of an ancestral race of the Taelons called the Kimera.