The Order of Merit was based on tournament results during the season, calculated using a points-based system.[2] The top five players on the Order of Merit (not otherwise exempt) earned status to play on the 2017 Challenge Tour.[3]
^The number in brackets after each winner's name is the number of Alps Tour events they had won up to and including that tournament. It is rare for someone to accumulate many wins on the Alps Tour as success at this level usually leads to promotion to the Challenge Tour.
^"Satellite stars: Matt Wallace". European Tour. 4 January 2017. Retrieved 7 April 2023. 2016 Alps Tour graduates: Matt Wallace (England), Enrico Di Nitto (Italy), Federico Maccario (Italy), Tom Shadbolt (England), Victor Perez (France).