A film adaptation of the Holy Emperor story arc, which primarily depicted the conflict between Kenshiro and Souther. New characters Reina, one of Raoh's army officers who falls in love with him, and her brother Soga, Raoh's advisor, play an important part with much of the plot involving Raoh's relationship with Reina as he conquers the land; most of this portion is new content exclusive to this film. The other side of the story is the retelling of Ken's attempt to save and protect the villagers from Souther's army with the help of Shū. There is also a small subplot of Bart returning to his home.

拓也他们到了数码世界的一个浮起的岛，这个岛上的人型数码精灵和兽型是完全对立的，人型的数码精灵帮助了拓也、友树和纯平，而兽型的数码精灵则协助辉二和泉，拓也和辉二竟就此打起上来，后来因其它数码精灵哭了起来而停此。人型的剑道兽，与兽型的小熊兽是好朋友，他们说起洞穴里有古代的数码精灵，认为如果仍然存在的，必定可解救这个岛。两种型态再次战争，拓也进化成炎龙兽......

沙漠之国阿拉巴斯坦，虽然当地气候恶劣，但是国王寇布拉爱民如子，为了将国家建设成美丽的绿洲始终和百姓不懈努力。然而就在两年前，奇怪的现象离间了国王和百姓的关系。因为容易引起纷争，世界各国已严禁使用名为Dance Powder的降雨粉。但是阿拉巴斯坦曾大量购入Dance Power，在此之后，除国王所居住的阿鲁巴纳降雨正常外，该国其他区域全部为干旱所统治。一些民众认为寇布拉为己牟利，在克罗克塔尔的煽动下，反叛军揭竿而起，国家危在旦夕。 寇布拉的女儿微微公主逃离国家，与路飞等人结伴而行。他们偶然遇见了会变换各种容貌的孟德勒，从而得知克罗克塔尔的阴谋。海盗团扬帆起航，向阿拉巴斯坦进军，一场沙漠大冒险就此展开……