If you liked
Koukaku Kidoutai: Stand Alone Complex
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...then you might like
Higashi no Eden
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The shows have plots which feel similar to eachother with their focus on secet organizations, conspiracy and mystery. They are also both produced by Production IG so they have a similar look and feel.
If you liked
Ookami to Koushinryou
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...then you might like
Natsume Yuujinchou
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Spice and Wolf and Natsume Yuujinchou are rather episodic anime that focus on the development of the two main character's relationships. While the relationship between Natsume and Nyanko is not romantic it is similiar the the relationship between Horo and Lawerance in that it is between two beings who would ordinarily not get along, Natsume a human and Nyanko a youkai, Lawerance a human and Horo a wolf diety.
If you liked
Rurouni Kenshin: Meiji Kenkaku Romantan
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...then you might like
Gintama
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Gintoki and Kenshin have a great deal in common. Both are former samurai who were among the most feared by their enemies during a great war. Like Gintoki, who uses a wooden sword to avoid killing, Kenshin uses a reversed bladed sword, for the same reasons. There are also many similiarities between supporting characters in the two shows as well.