However, following Poland's elimination from the 2006 FIFA World Cup group stage, the entire staff, including Skorża, was sacked by the Polish Football Association.

On 13 June 2007, Skorża was appointed as the manager of Wisła Kraków which he led twice to a league title, winning Ekstraklasa in the 2007–08 and 2008–09 seasons.

In the 2008–09 UEFA Champions League third qualifying round, he managed to beat Pep Guardiola's Barcelona 1–0 in the second leg, but Wisła were knocked out as they lost 4–1 on aggregate.

[3] By the start of the next season, on 27 July 2009, he lost the Polish Super Cup against Lech Poznań 3–4 on penalties after a 1–1 draw.

[citation needed] On 1 September 2014, Skorża began his tenure as manager of Lech Poznań, signing a three-year contract with the club.

[8] In the 2021–22 season, during which the club celebrated its 100th anniversary, Skorża led Lech to its 8th championship and finished as runners-up in Polish Cup.

[13] In late November 2023, he announced he would depart the team at the end of his one-year contract, and take another break from management in order to spend more time with his family in Poland.

[16] On 27 August 2024, following the dismissal of his successor Per-Mathias Høgmo, it was announced Skorża would be re-hired as manager of Urawa Red Diamonds.

[18] Amica Wronki youth Dyskobolia Wisła Kraków Legia Warsaw Lech Poznań Urawa Red Diamonds Individual