Saito Hiraga and Louise Françoise Le Blanc de La Vallière go on the offensive after the events of Zero no Tsukaima: Princesses no Rondo. Together, they face off against King Joseph in the Holy City of Romalia with the help of two others who control the power of the “void”. But in the midst of the many conflicts ahead of them, an ancient evil begins to stir in the shadows. Will their close bonds blossom into something more or will they be shattered through the ever increasing difficulty of the tasks that they must undertake? Zero no Tsukaima F follows the story of Louise and Saito as they face their final challenges together.

In the Edo or Tokugawa period (1600–1868), Ran, a female wandering samurai whose skill with the katana is only matched by her taste for sake (rice wine), is joined by a chinese martial artist who calls herself Lady Meow of the Iron Cat Fist. Tsukikage Ran has individual episodes that are just short stories of their adventures.

While reminiscing about her journey so far, Aoi Yukimura finds herself eager to go mountaineering once more. A likely opportunity arises when Koharu Senjuin invites Aoi to check out the Mountaineering Club after school. As the head of the club, Koharu speaks enthusiastically of the activities she and the other members partake in, especially as they strive to reach the top in various competitions. Although impressed by the club's dedication to its goals, Aoi feels reluctant to join, preferring to learn and enjoy mountaineering at her own pace. Her experience during this brief visit, however, leaves her wondering why she climbs mountains in the first place. With the support of her friends, Aoi searches for the true motivation behind her hobby, all while continuing to train for the highly anticipated second trip to the summit of Mt. Fuji.

Not far from the town of Domina lives Shiloh, a boy who keeps hearing a voice in his dreams about a mission he must fulfill. But what mission could he be needed for remains unknown. That all changes when he meets two Jumi, a race that’s hunted for their unique gemstones, as a sudden outbreak of attacks against the Jumi occurs. His dream, his quest, becomes clear—help the Jumi and their gemstones!