[3] According to the U.S. Census Bureau, the township has a total area of 18.2 square miles (47.3 km2), all land.

It is in the Schuylkill watershed and the Northkill Creek and Blue Mountain form its natural western and northern boundaries, respectively.

Interstate 78 crosses Upper Bern west-to-east with an interchange in the village of Shartlesville.

[7] Interstate 78 and U.S. Route 22 are the only highways serving Upper Bern Township.

They follow William Penn Highway concurrently along a southwest-northeast alignment through the middle of the township.