Škobalj was an assistant coach of Dragan Šakota in the national team of Serbia and Montenegro at the 2006 FIBA World Championship in Japan.
[3] In 2009, Škobalj was hired as the head coach of the Hørsholm 79ers in the Danish league, Basketligaen.
[5] From 2012 until 2014, he coached two clubs in the Moroccan League, Sport Plazza in Casablanca and Amal in Essaouira.
[7] On 9 May 2016, he was named the head coach of Team FOG Næstved of the Danish League.
[12] From December 2021[13] until the end of the 2022-23 campaign, he served as head coach of the Musel Pikes in Luxembourg.