Gornji Škrnik is located in the municipality Zagorska Sela, in Krapina-Zagorje County at an elevation of 200 meters above sea level and it covers the area of 0.92 km² (0.36 sq. miles). According to the 2011 census report, there were 55 inhabitants. It is predominantly populated by Croats (98%), but also. Nearby places: Brezakovec, Donji Škrnik, Razvor, Kladnik, Velinci, Škalić Zagorski, Zagorska Sela, Jelenjak, Kumrovec and Donji Jalšovec.