 If you liked
Mahou Shoujo Madoka★Magica Movie 3: Hangyaku no Monogatari
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 ...then you might like
Yu☆Gi☆Oh! The Dark Side of Dimensions
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Kaiba and Akemi due to their obsession and personal reasons are in the pursuit the save the protagonists after spending amount of time from the main series involving the powerful antagonist whose goal deals with the threat of the universe.
Both involve in alternate realities such as Rebellion creates a new timeline while Dark Side of Dimensions is set in the manga timeline.
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Recommended by WingZeroRequiem