Under Lomi's direction, they head towards the voxyn cloning facility. While heading through a crowd of slaves, they are attacked by five men in disguise throwing various objects at them. They are actually Yuuzhan Vong imposters! Jaina gets trapped against a wall; Anakin saves her, but is stabbed in the stomach by an amphistaff. With the Force by their side Anakin and Jaina fight off the remaining warriors.

Han and Leia head out on a recon mission, but instead run into the approaching Vong fleet heading to Coruscant. They contact the New Republic and are able to defeat a sector of the attackers, but the rest continue on.

Anakin’s injuries worsen, but eventually he and the strikeforce arrive very near to where the voxyn is being kept. As they wait to make the next move they see their escape ship flying off overhead as the Dark Jedi have taken it. Their hope of escaping in the ship is lost and Anakin's situation is now growing dire. The have no choice to continue on and they attack a large group of Vong warriors.

Shesh returns to kill Ben Solo, but is interrupted by C-3PO who tells them she is expected. Realizing her game is up she jumps out the window saving herself, but the Vong with her are killed by the Noghri bodyguards.

During the battle, Anakin heads towards the voxyn location and see Lomi come through the door. He realizes it must be another imposter! The membrane door opens and forty more warriors pour in. Anakin opens himself fully to the Force and lets of flow into him. The Jedi can sense that the voxyn is on the move. Anakin tells Jacen to lead the charge after it. Anakin, now fully one with the Force continues on in battle. He receives several more wounds and urges his brother and sister to continue on while he holds them off. Anakin sees the Lomi imposter carring a cargo pod full of voxyn tissue towards an exit. Again pleading with his siblings to leave, Anakin tosses his last thermal detonator towards the impostor who is revealed to be Nom Anor. Anakin uses what's left of his Force ability and strength to push the detonator towards the cargo and destroy all the surrounding attackers. Anakin's bravery pays off in battle, but he has sacrificed his own life in the process.
On Eclipse, Han hears Leia's screams. While she is not able to say the words, Han realizes that Anakin is dead. Luke, Mara, and Ben also feel the shock.

The Yuuzhan Vong fleet arrives at Coruscant initiating a planet wide evacuation. New Republic ships mobilize to defend the planet, including Wedge Antilles. The Vong deviously use refugee ships to work over the planet’s shields. After the intense pressure, the yammosk that Danni had taken starts talking again.

Jacen and Jaina suffer with the guilt of leaving Anakin's body behind, Jaina and a few others returns for him as Jacen continues the search for the Queen.

As the Jedi and go back to retrieve Anakin's body, they find Vergere with Anakin's light saber. After many Vong are killed one remains and uses Anakin's body as a shield. She opens herself to the Dark Side and her hatred for the Yuuzhan Vong begins a spill forth in powerful ways. With a blast of force lightning, she blows through the helpless Vong warrior! Vergere witnesses this display in disbelief. Jaina retrieves Anakin's body and they all head towards an escape shuttle

As the scene on Coruscant worsens, the Solos and 3PO head towards the Falcon. Shesh finds them again and attempts to disguise herself as a refugee in hopes of getting aboard their ship. Leia is not fooled and Shesh is forced to run away with Leia and Han in hot pursuit. While Leia injures her with her lightsaber, Shesh escapes. When they return to the Falcon (which is unable to fly of course), 3PO has already departed on another outbound ship along with Ben. While they frantically search for help with repairs, Mara and Luke learn that the Vong have trapped Ben and 3PO’s escape ship and go to assist. Mara’s ship is shot down and Luke follows her as she crashes back to the planet. Lando boards the ship and recovers Threepio and a still sleeping Ben hiding in a locker.

Jaina comes to the aid of Jacen and the others but comes under heavy fire herself. After several nearby explosions, Jacen's comlink is filled with the voice of Vergere who tells the Jedi that they have nothing to fear from her and she points them in the direction of the Queen.

While Jacen goes off alone to attack the Queen, Jaina is able to rescue the other remaining Jedi. Jacen and the Queen fight fiercley and Jacen is poisoned. The Queen falls over an edge and hangs over the dovin basal. Using the Force, the weakend Jacen pushes her off the wall and into the crater. Vergere rescues Jacen and uses her tears to help him heal, but tells him the price for his victory has just begun.

Overhead, Jaina and the others come under heavy fire from a Yuuzhan Vong fleet and she is forced to jump away from the worldship and leave Jacen behind.

Fey’lya is distraught over the fall of Coruscant, but manages to destroy the planet’s important data so it will not fall into enemy hands. He also ensures that the Falcon is repaired. As many of the fleet attempts to retreat, Leia makes a passionate plea to them to remain and fight.

As the Vong take over his palace, Fey’lya attempts to speak with Tsavong Lah but is rebuked and instead is poisoned by a Vong invader. Knowing his situation is hopeless, Fey’lya activates a bomb that he had prepared and it destroys the palace, all its important information, and as many as 25,000 Yuuzhan Vong. Lah looks down from space and can see the explosion.

On the surface, Luke and Mara are rescued by the Falcon with Han telling Leia if they make it off the planet he’s refit Chewbacca’s old chair to fit her. Lando reports that Ben is safe. Luke adds congratulations to Danni and Cilgal for their work with the yammosk as it gives him hope for the future. Leia sense there is trouble with twins but trusts in the Force that they will return safely.