Moreau was expected to support his new teammate Francisco "Paco" Mancebo at the 2006 Tour de France who had finished the 2005 Tour de France in fourth place. In the Critérium du Dauphiné Libéré, Moreau finished second on the general classification behind Leipheimer and won the king of the mountains competition. When the Operation Puerto doping scandal was revealed the day before the Tour began, Mancebo was banned from competing in the Tour and Moreau became the leader for the general classification. After teammate Cyril Dessel took the yellow jersey on stage 11, Moreau worked for Dessel to try to preserve Dessel's high placing. On the 19th stage Moreau attacked on the climb to bring himself further up the classification and he finished the 2006 Tour de France in the 8th place behind Dessel (Moreau was later moved up to 7th place after the disqualification of Floyd Landis).