Kanon and Fuka move into the dormitory, and Kanon begins her first day of school at Angie Private Academy. The crossing guard is turned into the Negative Jeweler, Katakotoyanen, and Miracle Tunes defeats her to recover the Samba Jewel. With their Harmony Energy charged, Miracle² records their song, "Catch Me!", to prepare for their debut.

Miracle²'s debut event draws near, and Kanon invites her classmates to attend. However, right before the event, the Dokudoku-dan turns a pet groomer into the Negative Jeweler, Nekojita, hoping to spread the Negative Aura to pet animals, starting with the dog of Rudolph, Kanon's classmate. Miracle Tunes defeats Nekojita and recovers the Mambo Jewel.

For Mother's Day, the girls decide to give their mother figures a flower bouquet. However, the florist has been turned into the Negative Jeweler, Tearegimi, who is spreading her Negative Aura through flowers. Miracle Tunes defeats her, recovering the Trumpet Jewel.

Miracle² films their first television appearance with popular child star Ryo on his cooking show, but when one of his fans turns into the Negative Jeweler, Kubittake, she begins to turn the rest of his fans against him, leaving Miracle Tunes to rescue him and recover the Flute Jewel.

A camera crew follows Kanon for the entire day to get an exclusive interview with her. Kanon becomes careful about her image, until she and her classmate, Yunta, start throwing garbage at each other. Meanwhile, a garbage man becomes the Negative Jeweler, Honeorizon, causing him to block Park Road up with garbage. Miracle Tunes defeats him and recovers the Folk Jewel.

Kojiro takes the girls shopping, to Fuka's displeasure. Meanwhile, the Dokudoku-dan turns Kojiro's hairstylist friend into the Negative Jeweler, Neguserin. Miracle Tunes defeats him and recovers the Hip Hop Jewel.

Seitaro, Mai's father, returns from overseas and invites Mai to watch him conduct an orchestra. While Mai is at the concert, two birthday party entertainers (Afro Goto and Junichi Takahashi) are turned into the Negative Jewelers, Yo One and Yo Two. Mai decides to leave to help Kanon and Fuka, and they use the Hip Hop Jewel to purify the Negative Jewelers. After recovering the Rock Jewel, Mai returns in time for her father's concert and bids him farewell when he leaves the country again.

While Miracle² is interviewed on radio, Iwamoto (Akihiro Kakuta), Kanon's father's old bandmate, is turned into the Negative Jeweler, Mimizawari. Miracle Tunes uses the Rock Jewel to purify him and recover the Techno Jewel. However, their excitement is short-lived when they are notified that KariKari, a pop idol duo from the United States consisting of sisters Akari and Hikari, will be debuting in Japan.

Mai and Fuka are concerned about KariKari, whose popularity threatens their ability to gather Harmony Energy, while Kanon's classmates advise her to get her future told by the techno fortune teller, Jupiter Kazuo (Satoshi Judai). Jupiter Kazuo is turned into the Negative Jeweler, Senrigan, whose fortunes all lead to a dismal future for each of his clients. Miracle Tunes use the Techno Jewel to defeat him and recover the Reggae Jewel.

Fuka is upset at her parents cancelling their visit home, and while a parent-teacher meeting takes place at their school, and Mr. Sakurai is turned into the Negative Jeweler, Sunegajiri. Miracle Tunes defeats him by having Mai answer his questions correctly, and they recover the Castanet Jewel. Afterwards, Fuka receives a doll in the mail from her parents and makes amends with Kanon.

Miracle² and KariKari perform on the music competition program, Music Coliseum. Meanwhile, Kojiro becomes a guest on Chris Maeda's (Ken'ya Ōsumi) fitness program. When Chris turns into the Negative Jeweler, Taishibo, Miracle Tunes defeat him and recover the Salsa Jewel, with KariKari and Komuragaeri discovering their secret.

Now that the Dokudoku-dan know Miracle Tunes' true identities, they transform a reporter (Wakana Matsumoto) into the Negative Jeweler, Kikimimitatecchi, while Miracle² is scheduled to perform. Akari and Hikari volunteer to fight instead, with Alm and Sopra offering their Sound Jewels to them. They defeat the Negative Jeweler to recover the Waltz Jewel. After they return to the filming location, Sawanobori announces that both teams have won the competition, since Akari and Hikari are now part of Miracle².

With Akari and Hikari as the group's new members, Miracle² holds a press conference. During the press conference, a reporter (Kouichi Oohori) is turned into the Negative Jeweler, Tabesugi. Akari uses her Miracle Tambourine to activate a barrier to protect Miracle Tunes, and they defeat him, recovering the Ballad Jewel.

While recording Miracle²'s new song, "Jump!", Mizoochi turns the song producer (Hiroshi Yamamoto) into the Negative Jeweler, Anotekonote, who puts Sawanobori under his control and attacks Hikari. Miracle Tunes defeat him with the Techno Jewel to recover the Maracas Jewel.

Miracle² holds a performance at Kamome Records to celebrate the release of their newest single, where it is rumored that idols who perform there will experience success. During the performance, the Dokudoku-dan turns the manager (Takeyasu Komiya) into the Negative Jeweler, Kowamote. Miracle Tunes defeats him, recovering the Enka Jewel. The Dokudoku-dan steal a bag, mistaking it for the Sound Jewel Case, but after being tricked, they declare war.

Miracle² is performing with Ayame Jindaiji (Nobue Iketani), a famous enka singer, on a music show, with Fuka's grandparents attending the show in support. Ayame is turned into the Negative Jeweler, Yanagigoshi. Miracle Tunes uses the Enka Jewel to tune her up, recovering the Horn Jewel. Meanwhile, Mizoochi infiltrates Miracle²'s dorm, only to be accosted by Kojiro.

Ryo invites Miracle² to his agency's building to watch the fireworks. Komuragaeri turns the CEO (Yoshiki Arizono) and his wife (Miho Ninagawa) into the Negative Jewelers, Wagamonogaozu. Kanon and Ryo are trapped in the elevator as Wagamonogaozu spreads a Negative Aura to the other guests, but once they are able to escape, Miracle Tunes purify and recover the Drum Jewel.

Miracle² trains at a temple in the mountains and share ghost stories at bedtime, but they become frightened navigating the temple at night. Komuragaeri sneaks into the temple and turns the priest (Yoichi Nukumizu) into the Negative Jeweler, Nodobotoke, and they scare Miracle Tunes. However, Komuragaeri mistakens Yuzuhara for a ghost and flees, allowing Miracle Tunes to tune up and recover the Punk Jewel.

Miracle² become judges for a comedian audition. Nechigae infiltrates the audition and turns Kojiro into the Negative Jeweler, Kuchibiru Pururun, who begins to target young men. Miracle Tunes defeat him and recover the Harmonica Jewel, but the Dokudoku-dan hypnotize Kojiro and kidnap him.

Kanon receives a ransom note during Miracle²'s handshake event demanding the Sound Jewel Case in exchange for Kojiro, though Kojiro escapes on his own. She secretly takes the Sound Jewel Case to the Dokudoku-dan. The Dokudoku-dan turn a construction worker (Kanji Tsuda) into the Negative Jeweler, Hofukuzettoka, and steal the Sound Jewel Case, but the rest of the girls come to her rescue. Miracle Tunes takes the Sound Jewel Case back uses the Rock Jewel to tune up Hofukuzettoka, recovering the Metal Jewel.

Miracle² is set to film a television segment. During shooting, Nechigae steals the Sound Jewel Case and turns the director (Yoshiko Inoue) into the Negative Jeweler, Haradekke. Miracle Tunes pursues Nechigae and takes back the Sound Jewel Case while Yuzuhara distracts Haradekke, attempting to transform using her Idol Jewel. Though it fails, Miracle Tunes rescues her and recovers the Marching Jewel.

While Kanon's class is having art class outside, Komuragaeri infiltrates her school and turns the art teacher (Toru Tezuka) into the Negative Jeweler, Shinbigan, who puts the students under his control. Miracle Tunes defeats him and recovers the Ocarina Jewel.

Miracle² films their television show at Montana, the cake shop Kanon's mother works at. Nechigae turns the shop assistants (Kanon Nanaki and Satomi Ohkubo) into the Negative Jewelers Mushiba and Sashiba. Miracle Tunes uses the Hip Hop Jewel to engage them in a rap battle and defeat them, recovering the Opera Jewel. Meanwhile, Kanon's mother witnesses their battle but decides not to tell her.

Miracle² celebrates Mai's birthday, and she receives her mother's CD in the mail. Together with Mai, Miracle² reminisces the times when each of them first became Idol Warriors. This episode is a clip show.

The Dokudoku-dan invade Miracle²'s dormitory and turn Yukie into the Negative Jeweler, Udekikokkun. Miracle Tunes defeat her, recovering the Tango Jewel. Afterwards, the Goddess of Music gives Mai the Crystal Melody Box, which plays a healing melody once all Sound Jewels have been collected and activates Final Mode after the Crystal Jewels have been found. However, the Demon King summons Sano and Uno, breaking the Goddess' mirror and creating five Super Negative Jewelers with the Crystal Jewels.

With Sano and Uno serving the Demon King, the Dokudoku-dan doubt their worth and leave. Miracle² finds a Negative Aura reading from an underground mall and are led to an old man (Tomio Suga), who transforms into the Super Negative Jeweler, Jinzo. He easily overpowers Akari and Hikari, but Mai uses her power to deflect his attack. Miracle Tunes uses the Rock Jewel to defeat him, recovering Mai's Crystal Jewel.

Hikari becomes restless and determined to find the Crystal Jewels. While Miracle² goes on a hiking trip to Mt. Christa, she tracks down a Negative Aura to a hiker (Kazuki Namioka), who turns into the Super Negative Jeweler Kaizo. Miracle Tunes use the Hip Hop Jewel to defeat him, with Hikari leading the rap battle, and they recover her Crystal Jewel.

At the Mirai Water Research Laboratory, Miracle Tunes face two Super Negative Jewelers, Shinzo (Akira Shinomiya) and Hizo (Shinichi Takamatsu), at once, who combine into one Hyper Negative Jeweler, W. Mai is injured, and motivated by their friendship, Miracle Tunes takes advantage when Shinzo and Hizo argue for control of W. With the Techno Jewel, Miracle Tunes recovers Kanon and Fuka's Crystal Jewels, allowing them to transform into Final Mode.

Uno infiltrates Raspberry Music's building and spreads a Negative Aura that affects almost everyone inside. Miracle Tunes cannot defeat him with their normal power, resorting to using the Crystal Jewels. Uno is defeated and turns into a tortoise, but Final Mode uses up all of the Harmony Energy, motivating Miracle² to perform and gather more.

Miracle Tunes investigate a parking lot to find Sano. Kanon and Fuka are captured, leaving the rest of Miracle Tunes unable to use Final Mode, as using the Crystal Jewels requires all of five of them. Mai has Akari and Hikari deflect her attacks against Sano to free them, allowing them to transform. Sano is defeated and turns into a hare, while the Goddess' mirror is repaired, allowing Miracle² to contact her again.

The girls prepare a surprise birthday party for Kanon as they recount the times they recovered the Hip Hop, Rock, Techno, and Enka Jewels, as well as Final Mode. This episode is a clip show.

Kanon is set to make her acting debut in the drama Samurai Boy and trains in kendo with Ryo. Meanwhile, the Dokudoku-dan have returned and transform the kendo instructor into the Negative Jeweler, Futokoro Gattana. Miracle Tunes defeat him with Final Mode, recovering the Taiko Jewel.

Shooting for Samurai Boy begins, but Kanon offends veteran actress Ruriko Himenaga (Akiko Hinagata) with her lack of experience and by accidentally mistaking her for Yukie. Mizoochi turns Ruriko into the Negative Jeweler, Nakibokuro, and she flees into the forest. Miracle Tunes use Final Mode and recover the Classic Jewel. Kanon vows to Ruriko that she will work harder, while unbeknownst to them, Yukie had acted in place for Ruriko while they were gone.

Fuka gets angry with Kanon over making mistakes during their dance lessons. Meanwhile, their dance instructor is turned into the Negative Jeweler, Chidoriashi. Fuka defeats her in a dance battle, and Miracle Tunes recovers the Flamenco Jewel. Afterwards, Fuka apologizes to Kanon and they make up.

The Dokudoku-dan turn the CEO of LuckToy (Tetsu Watanabe) into the Negative Jeweler, Yokunokawatsupari. Luckily, Miracle²'s Christmas event changes locations to LuckToy. During the event, Miracle Tunes use Final Mode to defeat him and recover the Handbell Jewel, and they later return for an encore performance.

Miracle² makes vegetable stamps and read fan letters as they recount the times they each found their own Crystal Jewel and used Final Mode. At the same time, they discuss the Demon King's next step. This episode is a clip show.

Miracle Tunes is summoned to the Music Kingdom, where they are quizzed by the Music Kingdom's fairy, Rinrin (Akiko Hinagata), to see if they are worthy of being Idol Warriors. After passing the test, Kanon wakes up to realize it was a dream. This episode is a clip show.

Miracle² celebrates Fuka's birthday. While practicing in the park, the Demon King appears in the real world via Komuragaeri's invention, spreading an intense Negative Aura. Miracle Tunes use Final Mode to defeat him, but he reappears behind them to steal Kanon's Crystal Jewel and shoot her with a ray of Negative Aura.

Kanon has problems with her voice, while Ryo's manager, Shiomi (Tomoya Maeno), has fallen ill. At the hospital, he is turned into the Negative Jeweler, Doguzettsu. Miracle Tunes use the Hip Hop Jewel, but Kanon is unable to resist his attacks. Yuzuhara intervenes to weaken Doguzettsu, and Miracle Tunes defeat him to recover the Jazz Jewel. However, Kanon has lost her voice from exposure to the Negative Aura after the Demon King had shot her.

After Kanon loses her voice, rumors of her leaving Miracle² begin to surface. However, when her fans support her during Miracle²'s fan meeting, one of them is turned into the Negative Jeweler, Mayutsubamon. Kanon's determination to save her fans earns her voice back, and Miracle Tunes defeats the Negative Jeweler with the Rock Jewel, recovering the Pop Jewel.

Fuka is given the opportunity to become a dancer in the United States and must decide between pursuing her dream or staying as an Idol Warrior. Meanwhile, Komuragaeri turns a tour guide (Barbie) into the Negative Jeweler, Herazuguchi, who spreads a Negative Aura onto the other tourists. Fuka makes the decision to stay in Japan and arrives to help Miracle Tunes. Together, they use the Enka Jewel to captivate the tourists and defeat Herazuguchi, recovering the Bossa Nova Jewel.

Mai wants to recreate a chocolate cake that her mother made for Valentine's Day to give to her father. Meanwhile, Nechigae turns a shop assistant (Nonoka Ono) into the Negative Jeweler, Mune Kyunkyun. Miracle Tunes defeat her to recover the Cello Jewel. Afterwards, when Mai gives her father the cake, she discovers that he knows the song of the Crystal Melody Box and learns that the Goddess of Music, who had composed it, is her mother.

Akari and Hikari are set to appear in the magazine, Lovely Farm, but Akari rejects the job due to her fear of earthworms. Hikari is disappointed by her lack of professionalism and confides in Komuragaeri, who has gotten into a fight with Nechigae. Realizing how hard Hikari is working, Akari reconsiders the job. However, one of the farmers is turned into the Negative Jeweler, Daikon Asshi. Miracle Tunes uses the Techno Jewel to defeat her, recovering the Triangle Jewel.

Miracle² is set to represent Japan on World Idol Battle, where they will be competing with idols around the world. Meanwhile, Nechigae has targeted Kanon's classmates and put them under control with her song. Miracle Tunes rescue them with their own song and dance and fight Nechigae, but she is rescued by Mizoochi and Komuragaeri. The Dokudoku-dan defeat Miracle Tunes and flee, warning them that they will summon the Demon King to Earth soon.

The Dokudoku-dan finish building a machine to summon the Demon King to Earth while recounting their failures. The Goddess of Music warns Miracle² that the Demon King may arrive soon. This episode is a clip show.

World Idol Battle begins and all of Miracle²'s friends and families watch in support. During Miracle²'s performance, the Demon King and the Dokudoku-dan appear at the studio, spreading a Negative Aura around the world. Miracle² is forced to transform in front of the audience, but the Demon King defeats them, petrifying the Rhythms and striking everyone except Kanon with a Negative Aura. Realizing the cameras are still filming the show, Kanon confesses that Miracle² is Miracle Tunes.

Kanon tells the audience about Miracle Tunes and faces the Demon King, who strikes her with a Negative Aura. She overcomes it, inspiring the other girls to break free from the Negative Aura and face the Demon King with a song. Their friends, families, and the Dokudoku-dan join them in support. The song weakens the Demon King and Kanon's Crystal Jewel returns to her, allowing Miracle Tunes to use Final Mode. With all Sound Jewels collected, they play a song that purifies the Demon King, and he vanishes.

Miracle Tunes celebrates their victory, but the Rhythms and Yukie return to the Music Kingdom. The Dokudoku-dan tells Miracle² that they are debuting as idols as the Wakuwaku-dan, with the reformed Demon King as their leader. At night, the Goddess of Music appears to Miracle², thanking them for their help and telling them they will no longer be Idol Warriors before departing. When Miracle² wakes up, they run to the mirror to thank the Goddess.