Dawn Taylor Robinson, 40, of Buchanan, was arrested Thursday, said Haralson County Sheriff Eddie Mixon.
Mixon said the pastor of Victory Fellowship on Hwy 27 in North Bremen became suspicious after one of the church's checks was returned for insufficient funds.
The Rev. Sidney Garner contacted the sheriff's department. According to reports filed with the Sheriff's Office, Robinson may have taken as much as $400,000.
Some of the money was allegedly deposited into an account in Oxford, Ala.
Robinson faces 332 counts of theft by taking and is free from the Haralson County Jail on a $300,000 bond.
The Georgia Bureau of Investigation is assisting with the investigation.