At the start of the 2008–09 season, Marques, who is fluent in Spanish, acted as a translator for new Argentine signing Luciano Becchio. After a poor start to the 2008–09 season, with Leeds' defence leaking a lot of goals, McAllister was sacked and was replaced by Simon Grayson. Marques scored in Leeds' 2–0 win against Southend United on 28 January 2009. Marques played regularly under Grayson and began partnering new signing Richard Naylor, but when Sam Sodje was signed on loan from Reading, Marques lost his place when he suffered an hamstring injury. Leeds reached the playoff semi-finals but lost to Millwall.