It happened at St. John's Lutheran Church in the village of Hebron, which is less than two miles from the Illinois, Wisconsin state line.
Don Gritmacker, church council president, said lightning may have potentially hit the church.
"We have a possible lightning strike on the steeple. We don't know that for sure. It has not been confirmed. The structure is sound.
The church official said they also found water damage to parts of the building. This comes as heavy rain and thunderstorms moved through the area.