Anakin watches in amazement from his hiding place as Padme fights like a trained soldier. Just as he hides inside a fighter ship, a door opens revealing Darth Maul! The Jedi engage the Sith as the others take the long way around.

Anakin had vowed to protect Qui-Gon and Padme and now his chance is upon him. He and R2-D2 open fire on the nearby droids as the ship goes into autopilot and takes off. It heads into space with a nervous boy at the controls and streaks right into the battle overhead.

The Jedi battle Maul hard and as a team. Maul kicks Obi-Wan off of a bridge and Qui-Gon continues the fight on his own. They head down a hallway, but a laser field cuts the three men off from each other.

Trying to avoid entanglements, Padme leads her team through underground tunnels and secret passages through the Palace. Eventually they reach the throne room and are subsequently surrounded by droids. Padme calmly tells her men to drop their weapons.

The Gunguns are able to hold off the droids at first but are now falling fast and the call for a retreat is given out.
In space, R2 manages to get the autopilot turned off and Anakin engages in the battle. After successfully avoiding a few ships, he is shot and crash lands inside the hanger bay of the droid control ship. Droids descend on his location and his ship is overheating.

Obi-Wan is not pleased that Qui-Gon went on without him and he rushes to join him as laser walls turn on and off down a corridor.  Obi-Wan is blocked, however, before he can reach them. He can only watch the duel taking place on the other side of the last wall. While he knows his Master is a very skilled swordsman, the Sith is much younger and faster. Eventually, Qui-Gon makes a mistake and Maul stabs him through the mid section and he falls to the ground as Obi-Wan screams!

Gunray believes this handmaiden in front of him is actually the Queen in disguise, but when another Queen in regal garb appears down the hallway he lets his attention slip from Padme. She retrieves two blasters from the throne and takes out the remaining droids. The decoy strikes again!

Enraged at his master’s death, Obi-Wan throws himself at Maul and the two fight furiously. Obi-Wan is wearing down and tries a final assault, but Maul easily turns it away and pushes Obi-Wan down the deep shaft in the middle of the room. Obi-Wan is just barely able to cling to the side!

R2 stalls the approaching droids until the ship is functional again. As power is restored, Anakin jumps up from the cockpit and begins firing blasters and missiles into the interior of the ship. With explosions all around, they head for the exit.
Maul looks down in satisfaction at Obi-Wan, but is taken by surprise when Obi-Wan leaps from the shaft and calls Qui-Gon’s lightsaber to him with the Force. Before Maul can react, Obi-Wan ignites his blade and slices the Dark Lord in half and he falls into the shaft!

As Anakin flies from the ship, the damage he’d inflicted pays off as the ship begins to explode. The other pilots react with screams of victory. Inside the Palace and on the Gungan battlefield, the battle droids suddenly switch off.

Obi-Wan runs to Qui-Gon’s side. The old master makes him promise to train Anakin and Obi-Wan agrees without a second thought as he watches his friend die.

The Battle of Naboo is won and the Trade Federation leaders are taken into custody for trial. Palpatine returns in triumph having been elected Chancellor. When Obi-Wan learns of Anakin’s actions in battle, he begins to believe that Qui-Gon may have been correct after all. By acting without thought, only on his instinct, and still winning the fight, Anakin Skywalker could be the Chosen One.

As Obi-Wan waits for Qui-Gon’s funeral to begin, Yoda arrives and bestows on him the level of Jedi Knight. He also says that Anakin is to be trained, despite Yoda’s own personal objection. He cautions Obi-Wan to take the greatest care as the boy’s future is clouded.

At the funeral, Obi-Wan knows his old life is over and a new one has begun. He tells Anakin that he is now his new master and the boy will be trained. Nearby, Yoda tells Mace Windu that while Obi-Wan is indeed ready to be a Jedi Knight; he may not be ready to train Anakin. Regarding the Sith, Yoda says that there can only be two at once, a master and an apprentice, but neither of them can say for sure which one was killed in the fight.

Sidious is disappointed that Maul was killed, but overall the mission was a success and the groundwork for the revenge of the Sith is taking shape.

Despite the celebration around him on Naboo, Anakin is still unsure of his decision to leave his mother, especially after the loss of Qui-Gon as well. Obi-Wan tells him that Qui-Gon would be proud of the boy, and so would his mother.