Gon, Kurapica, and Leorio arrive at Kukuroo Mountain only to find out that they cannot get close to the Zoldyck family estate. The Zoldyck family owns the mountain and all of the surrounding forest and the entire region is gated shut. There is a guard outpost immediately outside of the gate, but instead of serving as a guard, the man working in there actually cleans up the mess created by the watchdog whenever there are intruders into the grounds. Gon, unwilling to give up on "rescuing" Killua, learns from the gatekeeper that the actual door is the massive stone gate and anyone who enters via that path will not be attacked by the watchdog. Leorio tries to pull and push on the gate, to no avail. The gatekeeper informs them that the gate opens up different amounts of stone slabs based only on the strength of the person; however, the least amount of strength anyone needs to open the smallest portion of the door requires two tons of strength on each side.

Gon and Killua arrive at the Heavens Arena and begin to work their way up, making a new friend, Zushi, who is trained in the martial arts.

Gon faces the Nen user Gido in his first 200s Heavens Arena match. Gon uses Ten to protect himself, but he soon finds himself on the defense against Gido's Dancing Tops. As Gon desperately tries to find a way to fight back, he makes a bold decision...

Gon has fights against Gido and Riehlvelt coming up. He's still mad about what they did to Zushi. Gon is able to withstand Gido's attacks and overwhelm him in battle. This causes Hisoka to smile.

Having learned his Nen ability, Kurapika pursues a Hunter's work that will get him close to the New York auction.

Kurapika and the other job candidates have to battle their way out of the employers mansion... if they ever hope of obtaining any of the items they even need for the job.

The anticipated battle between Kurapika and Uvogin begins! Can Kurapika really withstand Uvogin's abilities, and just what are the full extent of the powers in Kurapika's chains?

Gon, Killua, and Leorio are trying to get their hands on enough money to buy Greed Island. As they pass through the market, Gon stumbles across a way to identify valuable items. The plan is to buy cheap and sell low, but someone else is bidding on all their items.

Gon and his friends are hoping to win the reward that's been placed on the Phantom Troupe. At the same time, Machi and Nobunaga have been dispatched to search for the "chain user" because Uvogin hasn't returned. Gon and Killua receive a tip and begin shadowing the two Troupe members.

Gon and Killua have been captured by the Phantom Troupe. They are questioned about the chain user that the Troupe is searching for, but the two of them don't know that the chain user is Kurapika. As they're about to be released, Nobunaga decides to keep them around as potential recruits for the Troupe.

The Troupe is attacking the auction with all their power. The Ten Dons hired assassins are no match, except for Zeno and Silva.

Chrollo uses the information he has on Neon to identify the location of the chain user, Kurapika. Meanwhile, Killua is keeping an eye on the Phantom Troupe base when he is joined by Melody, who helps determine that the Troupe is headed towards Kurapika's hotel. The Troupe is finally closing in on Kurapika.

Kurapika has captured Chrollo. He offers to release Chrollo if Pakunoda brings Gon and Killua to him. However, Kurapika is unable to control his emotions in the presence of the Troupe leader.

The game Greed Island, which holds a clue to finding Ging, is finally on auction. Gon and Killua ask the winning buyer to hire them as players, but they're told that their Nen is too weak. They begin to work on special abilities so they can be selected as players.

Gon and Killua are trying to get themselves chosen as Greed Island players. Tsezgerra, the judge, says that he will make his decision after they show him his Nen. Only 32 of the 200 applicants will pass.

Gon and Killua set off for Masadora in search of spell cards. On the way, they run into many different monsters. However, they struggle against some of the stronger monsters. A girl named Biscuit watches as they fight their way through.

Gon and Killua are gradually improving their Nen under Bisky's tutelage. They are now able to easily capture the monsters that they previously struggled against. While their training draws to an end, the Bomber is paying a visit to the players who have teamed up.

Killua returns after easily passing his second try at the Hunter Exam. Now that Gon, Killua, and Bisky are together again, they begin working on beating this game by collecting cards. Meanwhile, the other players are scheming to gather the cards they need to complete the game.

Team Genthru now has 96 different types of restricted slot cards after tricking Team Tsegzerra. Gon and Killua receive an invitation from other players to team up to prevent Genthru from beating the game. They head to Soufrabi to monopolize Patch of Shore, one of the cards Genthru is missing.

In order to beat the game, the other players must face off against Genthru. Tsezgerra offers to distract Genthru for three weeks. While Gon trains hard, Team Tsezgerra leaves the game temporarily to delay Genthru, but Mr. Battera has an unpleasant surprise for them.

Tsezgerra's tea has not returned to the game. Genthru finally turns his attention to Gon's group. Gon faces off against Genthru, Killua is against Sub, and Bisky takes Bara.

Genthru has shown that he is much stronger than Gon. However, after Gon refuses to back down, he finally uses Little Flower to severely injure Gon.

After defeating Genthru and collecting 99 restricted cards, Gon and his friends participate in the final event, a quiz tournament open to all players. After winning, Gon receives Ruler's Invitation.

Gon and Killua use the cards they brought back from the game to warp to Nigg, who they believe is Ging. However, they are sent to a completely different man who immediately knocks them to the ground. However, Gon finds him familiar for some reason.

Gon and Killua join Kite's team as they investigate the Chimera Ants. The Chimera Ants are dangerous insects that can pass traits from the prey they consume to their offspring. As Kite begins to fear the worst, the Chimera Ants begin to feed on humans.

Kite uses the location where the Chimera Ant arm was discovered and ocean patterns to determine where the actual Chimera Ant is. It turns out to be an isolated country that bans all forms of technology. Meanwhile, the Chimera Ants continue to evolve.

After passing a strict border checkpoint, Gon and his new friends enter NGL where they suspect the Chimera Ant is. However, ten other teams of Hunters have already arrived before them. Meanwhile, the Chimera Ants, with their new names and individual personalities, are attacking humans.

Pokkle and Ponzu use Ponzu's bees to deliver messages asking the Hunter Association to help eliminate the Chimera Ants. Meanwhile, the Chimera Ants have attacked Gyro, the shadowy ruler of NGL, and taken his guns. As the situation gets worse, Ponzu's message reaches Gon's group.

Gon, Killua, and Kite discover the remains of a destroyed village. There, they encounter their first Chimera Ant. Gon and Killua are shaken by the speed and power displayed by the Chimera Ant. However, Kite tells them that they must defeat the Chimera Ant or leave.

As Gon, Killua and Kite approach the nest, one of the Chimera Ant Royal Guards, Neferpitou, awakens. Upon extracting information from a surviving Hunter, Neferpitou learns the secrets of Nen, including the means to awaken and control it.

As the Chimera Ants are reunited to unlock the power of Nen into their bodies, Neferpitou feels the presence of Kite approaching and leaves to confront him. Realizing that the enemy is too powerful for them, Kite warns Gon and Killua to flee, but Gon is taken by rage upon seeing Kite's arm being severed by Neferpitou and Killua is forced to knock him down and escape carrying him. After escaping the NGL, with Gon still uncounscious, Killua is approached by Chairman Netero who is sent there to wipe out the Chimera Ants assisted by two other Pro Hunters, Morel and Knov.

Gon and Killua meet Knov's student Palm and learn that to earn a place in the Extermination Squad and return to the NGL, they must win against Morel's students Knuckle and Shoot in one month. To increase their chances of winning, Palm asks for Biscuit's help and they start a harsh training routine with her. Meanwhile at the Chimera Ants nest, Shaiapouf, the second Royal Guard awakens.

Gon and Killua are finally facing off against Knuckle and Shoot. Killua takes Shoot while Gon's opponent is Knuckle. Gon succeeds in sensing Knuckle through his aura, but then LoanBoy pops up on his left arm. Meanwhile, Killua is struggling against Shoot.

At long last, the Queen gives birth to the King. The Chimera Ants are cowed by the menancing aura emitted by the King. Pitou, Pouf, and Youpi kneel before the King to greet him, but with that gesture, they have abandoned the Queen.

Despite all efforts to save the queen, she does not resist her wounds and dies, but not before revealing to Colt the name she had chosen for the king, "Meruem". A final live offspring is found inside her body and Morel offers himself to protect both after he promises that they will never eat humans anymore. As the other squad leaders leave to build their own colonies, the king and the royal guard arrive at the neighboring country of East Gorteau.

After a brief fight with Cheetu, Morel and Knuckle return to check on Gon and Killua as they finally reunite with Kite, but upon seeing that he was turned into a mindless rogue by Neferpitou, Gon swears to avenge him. The Hunters then travel to East Gorteau, where the government summons all the population to meet at the capital for an undisclosed event in ten days. Knowing that it is all a plan of the Chimera Ants, Netero contacts the others and they start making plans to confront the king and the royal guard in the night preceding said event.

As news about the rogue Chimera Ants spread arround the world, six members of the Phantom Troupe appear at Meteor City to wipe out some of them which had established a colony there.

The Phantom Troupe reaches Zazan, the leader of the Ants, eliminating all oposition on the way. Fighting Zazan by himself, Feitan is forced to unleash his true power against her, which is feared even by his companions.

Gon becomes friends with Meleoron, who in return reveals the true extent of his powers and the reason why he wants the king dead. As the Hunters make adjustments in their preparations to storm the palace, the king entertains himself with board games until an unusual player appears before him.

Despite having mastered the rules of the board game "Gungi", the king is upset for still being unable to defeat the champion before him. Meanwhile, Morel is approached by Cheetu who uses his new abilities to trap him inside a closed space, claiming that he can't leave unless he manages to catch him in 8 hours.

As the king is yet to defeat his opponent, Cheetu tries to provoke Morel into running after him with no success, unaware that he is setting a trap for him. Meanwhile, Knov realizes the enemy's trick to detect him and comes with countermeasures against it.

Gon and his friends make the final preparations for their assault on the palace. Meanwhile, the king is yet to defeat Komugi, the Gungi champion and when he decides to kill her, he ends up protecting her instead, for reasons that even he can't explain.

The time has come for Gon and his friends to infiltrate the palace and confront the Royal Guard, who are making preparations for the upcoming selection. As his concerns about Komugi increase, the king starts questioning his own existence and purpose.

The selection is at hand, but the king starts isolating himself from his servants, including the Royal Guard. Meanwhile, Gon's party is about to break into the palace.

The Hunters assault on the royal palace begins. Gon and his friends break inside and come across Menthuthuyoupi, while Netero and Zeno strike from the sky and Neferpitou jumps up to confront them, just to be driven away when the chairman makes a small demonstration of his powers.

Gon's party confronts Youpi while Pouf and Pitou rush to the palace to assist the king, who is distraught with Komugi's condition as she gets herself badly injured during the attack.

The disguised Ikalgo reaches the lower levels of the palace to look for Palm, unaware that he is being followed. Meanwhile, Meleoron leaves Knuckle's side and proceeds further into the palace, but another Chimera Ant, Welfin, tracks his smell. Elsewhere, Gon and Killua find Pitou, who is too busy to fight them while tending to Komugi's wounds.

Face to face with Pitou, Gon can't hold back his rage and urges the chimera to fight him. Realizing that Pitou is willing to sacrifice itself to protect Komugi, Killua attempts to calm down his friend down with no success, but in the end, Gon gives one hour for Pitou to treat Komugi in exchange of accompanying him to meet Kite and help him recover his senses.

Taking advantage of Youpi's distraction, Killua vents out his anger by beating him up, but is forced to flee after his lighting power runs out. Meanwhile, Ikalgo makes use of the underground security system to outsmart his pursuer and find a way to escape back to surface. Morel, on the other hand, is in doubt about whether he should make the first move against Pouf or not.

Morel decides to make the first move and unwillingly frees Pouf from his restrain. Upon realizing that Shoot is missing, unaware that he was taken by Knov to be treated, Knuckle confronts Youpi, assisted by Morel, whose options are drastically reduced upon having his pipe stolen by Pouf, who after realizing that the king is nowhere to be found, decides to rejoin Pitou, who is still working to stabilize Komugi under Gon's vigilant eyes.

Ikalgo is attacked by Welfin but the enemy's attempt to restrain him backfires and they find themselves in a stand off. In the occasion, Welfin regains some of his lost memories from when he was still human and gives him a hint regarding Palm's location.

The fight between Netero and the king comes to an end.

Pitou completes Komugi's treatment and Gon forces her to accompany him to Peijing in order to restore Kaito's mind, while Komugi stays behind with Killua and the others. Meanwhile, Pouf and Youpi reach the site of Netero's battle with Meruem and can't hide their feelings of sadness upon finding their king's maimed body.

Shaiapouf continues his plan to remove anything that could trigger Meruem's memory of Komugi as the King arrives at the palace. Killua continues to hold onto Komugi, and meets with Palm. Gon and Neferpitou arrive where Kite is, however, Gon must now face the truth.

After telling gon the truth about kite, Pitou tells gon that she is sorry for what she did, but it's too late for apologies.

Meruem uses his final permissible En and enlightens his surrounding with that and approaches to Welfin who was not detected by his En earlier. Caught between the desire to live and avoidable death, Welfin finally utters the name of Komugi and the secret Shaiapouf was trying so hard to protect now is finally revealed with Meruem regaining all of his memories about Komugi.

Now knowing his fate, Meruem admits defeat and reveals that all he wants now is to spend his final moments playing with Komugi, convincing Palm to tell him where she is hidden. East Gorteau and the NGL gets in turmoil after the fall of the Chimera Ants and the Hunter Association start making preparations to decide who will succeed Netero as its president. Despite knowing that she will also be poisoned to death by staying close to Meruem, Komugi stays by his side until his last breath and passes away in sequence.

With the elections in a stalemate, Pariston, the current vice-president proposes a new set of rules to his fellow Zodiacs in order to solve the impasse, but the others know that he actually plans to make use of this to secure a victory for himself. Meanwhile, Killua returns home and asks his father to let him see his younger sister Alluka, intending to use her mysterious and frightening power to grant wishes in order to save Gon's life.

Killua reunites with his sister Alluka and uses her as a leverage for them to be allowed to leave the Zoldick state, as her powers can only be used to heal Gon if she is close to him. Meanwhile, Illumi asks for Hisoka's help to stop Killua's plans, and with elections yet to reach a conclusion, the Zodiacs keep arguing about a possible way to bring it to end.

Gotoh is killed by Hisoka, while the other butlers keep following Killua until he manages to shake them off. Meanwhile, Illumi uses his needles to take control of several people to assist on his plans and when news of it come to the Association, a team of Hunters is assembled to bring him to justice, while some of them decide to take advantage of it in order to win the election.

The election proceeds without a winner determined yet, and Killua is cornered by Illumi, who demands him to reveal which secrets he is hiding regarding Alluka's powers. Meanwhile, Hisoka keeps murdering other hunters just to amuse himself.

Leorio is about to win the election, but loses all motivation to continue after a fully healed Gon appears before him, thanks to the power of Alluka, opening the way to Pariston's victory. Surrounded by his friends and the other hunters who celebrate his recovery, Gon meets his father at last.

Gon apologizes to Ging for failing to save Kite and his father instructs him to apologize to Kite himself instead, affirming that he will wait for him to return. Meanwhile, Pariston wins the election, but renounces in favor of fellow Zodiac Cheadle and Killua seals Alluka's powers away to ensure that he can live a normal life beside him.

Gon apologizes to Kite for not being strong enough to save him. Kite tells him they'll always be friends and that he should go get to know his dad. Gon returns to the Election Hall only to find a note that Ging has gone to the World Tree. Gon, Killua, and Alluka journey to the World Tree where Killua reveals Alluka's powers to Gon. Killua vows to protect his sister and says farewell to Gon, promising they'll meet again. Gon in turn promises to introduce Killua to Ging when they meet again.

Gon climbs to the top of the World Tree where Ging is expecting him, and the two finally have a heart to heart. In this occasion, Ging reveals his intentions to explore the world beyond the current boundaries known to mankind and Gon tells him of all his adventures, while his friends keep following their separate ways, each one of them with their own dreams and goals to pursue.