Elina, Kelly Sheridan, is now famous for defeating Laverna twice. She is invited to be Azura's apprentice at the Crystal Palace, Venus Terzo voicing Azura, where she will learn the ritual that brings the first rainbow of spring to life. Elina meets the other apprentices: Linden, Andrew Francis, an oread fairy who can talk to animals; Shimmer, Andrea Libman, a tiny and somewhat arrogant pixie with a lively tuft of hair; Lumina, Saffron Henderson, a moon fairy who foresees the future; Sunburst, Sharon Alexander, a sparkle fairy who dislikes Elina; and Glee, Lalainia Lindbjerg, a wood nymph who becomes Elina's best friend. Dandelion / Topaz, Tabitha St. Germain, joins the group as another spirited apprentice, while Dizzle, a puffball who falls for Bibble, is voiced by Cathy Weseluck. All together, they enter a world where magic dances with duty.
Unknown to Elina, Laverna, Kathleen Barr, the Enchantress's envious sister, plans to prevent the annual spring ritual the Flight of Spring and plunge Fairytopia into a 10-year winter. Elina does well in the first classes, earning the ire of Sunburst. Elina and Sunburst clash, getting them both reprimanded by Azura. Laverna leaves her exile and pretends to be a bewitched frog, deceiving Elina and Linden, who reverse the spell and free her. The two return to the palace to warn everyone, but the guardians don't believe that Laverna is loose because she left a decoy at the bogs, though Azura heeds their warning. Laverna finds Sunburst in the garden, captures her and uses a spell to take on her appearance in order to enter the palace. With Sunburst's appearance, Laverna poisons all the guardians without anyone suspecting her.
With the guardians in comas, the Enchantress gathers the apprentices and informs them they will need to perform the Flight of Spring, even though they are not fully trained. The apprentices practice the steps of the Flight of Spring, a magical dance that, only when correctly executed, can awaken the magical rainbow that marks the end of winter. During the flight, a small slip-up causes Elina to discover that Sunburst is actually Laverna; at this moment she stops, with the help of Bibble and Dizzle, sets out to find the real Sunburst. Since the weakness of sparkle fairies is water, Elina and her friends head to the river where they find Sunburst imprisoned in a magic bubble. Elina heads back to the garden bringing the real Sunburst with her. Laverna is forced to give up her disguise but demands the Enchantress hand over the crown or she will prevent the rite from being completed. The Enchantress hands over the crown and is imprisoned. Laverna does not keep her promise and shoots a magical ray to destroy the rainbow.
Elina steps in front of Laverna's magical ray and is helped by the other six apprentices, forming a spectrum with the seven colors of the rainbow that strike Laverna. Laverna loses her powers and is destroyed. The Enchantress and the Guardians are freed from the spells, and Elina's wings change to gain the beautiful colors of the rainbow. The rainbow finally appears, ushering in spring, and with their mission accomplished, Elina and Bibble can return to their home in the Magic Meadow.