The Geisha is used to shift a province to orthodox religion. If the orthodox percentage is low to start, the Geisha may initiate and investigation which can result in executions. You cannot directly assassinate with the Geisha as that capability in STW made the unit too powerful.
Incidentally, you may want to eliminate ships from the mod because you can easily outplay the naval AI. Also, I would recommend getting rid of the xbow unit and the kensai. The kensai is especially bad because it's impossible to properly play balance single man units in this combat system.
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