Football has been sponsored by the North Eastern Conference for its entire history, with nine of the original ten members participating. Waupaca belonged to the Bay Conference as an associate member for football when the North Eastern Conference was formed and has not competed in its football alignment to date. In February 2019, the WIAA and Wisconsin Football Coaches Association unveiled a comprehensive realignment plan for Wisconsin high school football, subject to realignment every two years. The North Eastern Conference's football alignment under this plan kept six member schools (Denmark, Freedom, Little Chute, Luxemburg-Casco, Marinette and Wrightstown) with Clintonville and Oconto Falls becoming members of the MONLPC Football Conference and Fox Valley Lutheran joining the Bay Conference. Menominee High School, located just across the Menominee River from Marinette in the upper peninsula of Michigan, joined as its seventh member. Kingsford High School in Michigan joined as an eighth member for the 2021 season, before the realignment of the 2022-2023 competition cycle placed them back into Michigan-based conferences. Marinette was moved to the Packerland Conference, and was replaced by full members Fox Valley Lutheran, who were previously football-only members in the Bay Conference. Since the North Eastern Conference was now down to six members for football, they entered into a double-crossover scheduling partnership with the Bay Conference, who also stood at six participants. In 2024, Fox Valley Lutheran made their return to the Bay Conference as a football member (before joining as full members in 2025), coupled with Sheboygan Falls and Two Rivers moving over from the Eastern Wisconsin Conference. With both conferences now standing at seven members, the scheduling alliance with the Bay Conference continued as a mandatory single-crossover game for each school. For the 2026-2027 realignment cycle, Two Rivers will be exiting to rejoin the Eastern Wisconsin, exchanging affiliations with the Kohler/Sheboygan Christian/Sheboygan Lutheran football cooperative.
