General director Theo de Rooij of the Rabobank Cycling Teams extended the contract of Jos van Emden through the end of 2008. His contract would have expired at the end of the 2007 season.
In 2006, his first season with the Continental Team, Van Emden recorded eight victories. He won the general classifications of both Roserittet (Norway) and Triptyque des Barrages. Additionally, he won stages in the Tour de Normande, Tour du Loir-et-Cher, GP Tell (where he won the prologue, too), Roserittet, and Triptyque des Barrages.
Jos van Emden placed seventh during this year's under 23 World Championship. In the Dutch National under 23 championships, he was fifth among the top six riders, all of whom were Rabobank racers.