A terrorist group invades a laboratory containing a deadly bacteria and destroys the lab with an explosion. They later announce via the internet they have gained possession of the bacteria and declare themselves to be the Red Siamese Cats, a terrorist group that was eradicated a decade ago.

Takuya Kanbara, Koji Minamoto, J.P. Shibayama, Zoe Orimoto, Tommy Himi, Bokomon, Neemon ride a Trailmon (Ball) through a desert when they get caught in a battle between human and beast Digimon. It is interrupted by the Lost Island, an island trapped between dimensions, crashing down between them and scooping all involved up.

One day Pop was out scavenging with Hana, and found a beautiful rose inside the Queen's garden. Curious, she picked the rose and brought it home. Unwittingly, that rose can cause all wishes to become true, whether good or bad. Good wishes will turn the rose white and bloom, while bad wishes will turn the rose black and wither. After a heated argument with her sister Doremi, Pop wishes that Doremi loses all her magic and be turned into a mouse. Hilarity ensues, as Doremi and the others try to put everything back to normal.

Doremi, her friends, and her family are visiting Doremi's Grandparents. Aiko fears Doremi's grandfather due to accident when she was young. The group learn of the legend of the Frog Stone and a story of a couple. The witch apprentices, minus Pop, go in search of the stone.

Three women – 27 year old Tokyo office worker Mire Yoshizuki, 22 year old fourth-year college student Sora Nagase, and 20 year old boyish, part-time Hiroshima okonomiyaki shop worker and freelancer Reika Kawatani – are drawn together by a magic gem.