During the Russian Civil War, the Red Army massacred large numbers of clergy and believers often on grounds of alleged support for the Whites; much of these killings were not officially instigated from the top, but were done on the initiative of local units of soldiers.[8] In later years, the church would declare that the excommunication was a misunderstanding based on the belief that these killings were officially instigated (however, they were never officially repudiated either).[9] However, later Soviet authors would claim central responsibility for these actions, including Yemelyan Yaroslavsky (who was a participant in these killings) who justified the campaign by claiming that the church was fighting against them.
Many monasteries were attacked. Holy Mountain Monastery near Kharkov was plundered very early in the civil war. In a nearby skete in the village of Gorokhova a monk named Izrail was murdered for refusing to hand over the keys to the skete cellars. In the same area, a religious procession was attacked on its way as it rested the night, and two priests, a deacon, the owner of the cottage where they were staying at as well as his daughter were all killed.[10]
Metropolitan Vladimir (Bogoyavlensky) of Kiev was the first bishop killed by the Bolsheviks on January 25, 1918. He had consistently opposed the revolution, and he was severely beaten as well as tortured before being shot outside the Monastery of the Caves. Before being shot by his murderers he prayed to God for them to be forgiven.[11]
In the Don region in February 1918 the Reds were killing every priest they could find.[10] An 80-year-old monk-priest named Amvrosi was beaten with rifle butts before being killed. A priest named Dimitri was brought to a cemetery and undressed, but when he tried to cross himself before being killed, a soldier chopped off his right arm. An old priest who tried to stop the execution of a peasant was beaten and cut to pieces with swords. In the Holy Saviour Monastery, Red soldiers arrested and killed the 75-year-old abbot by scalping him and beheading him. In the Kherson province a priest was crucified. In a Kuban Cossack village an eighty-year-old priest was forced to wear women's clothing, brought to the village square and ordered to dance; when he refused, he was hanged.[12]
In the Kuban Cossack village of Plotavy, Fr Yakov Vladimirov was targeted by the Chekists for his popularity. They executed him along with wife and one of his sons (he had two sons, but they killed a different child in place of that son by mistake).[13]
Bishop Hermogenes (Dolganyov) of Tobolsk, was killed along with other detainees on 16 June 1918 by drowning. He had organized a religious procession the day after the Tsar had come through Tobolsk on their way to Ekaterinburg (April 28), in which he blessed the Royal family. He was arrested the following week and the Soviets promised to release him for 10,000 roubles, and later 100,000 roubles. When the ransom was collected and submitted, the delegation of notables and clergy that had delivered it were arrested as well (and later executed). Germogen was reportedly taken on a river steamer, rocks were attached to his head and he was thrown into the water.[14]