Well, Kariya's target in the war is gone. And to get full, undistracted, use out of Berserker in his effort to win the war and thus the Grail and keep his end of the deal to save Sakura....He must throw Berserker against Saber. Otherwise Berserker will go for her anyway and it serves no purpose for Kariya. So focusing on Saber is the only thing he can do now to fulfill his goal in the war.
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