The court also ruled that Father Sophrony does not have a valid residence permit.
Sophrony, who as a layman was known as Petr Evtiheev, is a Russian citizen.
Sophrony told RFE/RL that he plans to appeal. An appeal has to be lodged within 15 days.
Sophrony runs an orphanage and an old people's home near Almaty.
He has been living in Kazakhstan since 1991, where he graduated from a religious seminary.
RFE/RL's Kazakh Service says the institutions run by Sophrony provide a home for some 113 children and 120 elderly and disabled people.
The United States has recently criticized Kazakhstan for alleged violations of religious freedoms.