Interesting question ... But you're still thinking of the word as a verb there is no logical answer but since in ba<x>seball the term "strike" is a noun it makes as much sense as anything
Maybe in the ol days when a batter missed, the coach would walk up and strike them in the head. Sounds good to me :)
3 good strikes to the noggin and you probably would be out. :)
I have a feeling you have the answer. Lay it on us.
Maybe it comes from strike as in stricken -to remove.