Ragan Ingram, a spokesman with the state insurance office, said a 16-year-old boy and a 14-year-old girl are each charged with second-degree arson in connection with a fire Sunday at Chapman's Chapel.
He said both juveniles live in the area. Ingram declined to disclose their names because they are being held under Alabama’s Youthful Offender law.
The outside of the building in rural Glencoe, about 60 miles northeast of Birmingham, received minor damage.
Federal officials say it appeared someone threw a small molotov cocktail at the church.
The fire is not believed to be related to a string of recent church arsons in Alabama.
A joint federal-state task force is investigating 10 other rural church arsons since Feb. 3.
Two unidentified men in their 20s or 30s are being sought. Those 10 involved church break-ins, with fires starting inside, near the pulpit.