In 2008, Faber returned to PSV to coach the under-19 squad. He signed a two-year contract. In November 2009, Faber showed interest in becoming the PSV academy director. The other youth coaches favoured Faber as well, but the PSV board decided to appoint Jelle Goes. He decided to leave the club again after the 2009–10 season, even though PSV offered him the position of Jong PSV coach. In February 2010, he passed his coaching exam, enabling him to be a manager in the Netherlands. Faber simultaneously agreed on a two-year contract as manager of MVV Maastricht. But in June, he retracted his decision after he was unsure about the club's financial perspectives. MVV accepted Faber's decision. Faber subsequently became the manager of FC Eindhoven after signing a two-year contract. The team performed well in the Eerste Divisie, with a fifth place at the winter break period. In December, Faber was approached by VVV-Venlo to become their manager, but he rejected the offer.