The Town of Farmington cares for the following four public cemeteries:
 Farmington, the largest, is located at W4295 County Road D, west of Mindoro.

Wet Coulee, located N7596 Christianson Road, off Amundson Road on State Road 108, south of County Road DE. La Crosse County’s only recipient of the Congressional Medal of Honor, Stanley Christianson is buried here.

Black Oak is located at N9141 Perkins Road, between County Roads V V and Q.

Burr Oak is located at N9141 County Road C, between Mindoro and Burr Oak.

Farmington’s cemeteries are managed by Leslie Bryhn (608) 857-3495.

There are two active private cemeteries in the town:
Christ Lutheran, also known as Burr Oak Lutheran located at W2695 County Road A, at the intersection of County Roads A and State Road 108.

Norden Cemetery at Lewis Valley Lutheran Church located at W5404 County Road T at the intersection of County Roads T and V.