Chihaya Ayase has spent most of her life supporting her sister’s model career. When she meets a boy named Arata Wataya, he thinks Chihaya has potential to become a great karuta player. As Chihaya dreams of becoming Japan's best karuta player, she is soon separated from her karuta playing friends. Now in high school, Chihaya still plays karuta in the hope that she will one day meet her friends again.

Ren Mihashi was the ace of his middle school's baseball team, but due to his poor pitching, they could never win. Constant losses eventually lead to his teammates bullying him and reached the point where his teammates no longer tried to win, causing Mihashi to graduate with little self-esteem. As a result, Mihashi decides to go to a high school in a different prefecture where he has no intention of playing baseball. Unfortunately, upon his arrival at Nishiura High, he is dragged into joining their new team as the starting pitcher. Although unwilling at first, Mihashi realizes that this is a place where he will be accepted for who he is; with help from the catcher Takaya Abe, he starts to have more confidence in his own abilities. Abe, seeing the potential in Mihashi, makes it a goal to help him become a pitcher worthy of being called an ace.

In this movie, that takes place three months after MaloMyotismon's defeat, the DigiDestined go up against Diaboromon again. Tai and Matt head back to the Internet to deal with him with Omnimon, while the younger Chosen Children go to deal with the rampage of a swarm of Kuramon (Diaboromon's Fresh form). With the help of Angemon and Angewomon (with T.K. and Kari), Omnimon was able to destroy Diaboromon again, but it turned out to be a trap, as his destruction allowed many more Kuramon to go to the Real World. Things go out of control when the Kuramon in the Real World merge to create a Mega level called Armageddemon, an alternate Mega in Diaboromon's evolutionary line. It is so powerful that neither Omnimon nor Imperialdramon were able to defeat it on their own.

The DigiDestined kids discover another one of their kind living in the United States, who's own Digimon falls victim to a powerful computer virus. In Japan this film was actually split into two parts. Digimon Hurricane Landing!! refers to the first part, and Transcendent Evolution!! The Golden Digimentals refers to the second part.