With Sam Sodje's loan spell over and captain Richard Naylor injured, Marques found himself as first choice central defence partnership with Patrick Kisnorbo at the start of the 2009–10 season, He lost his starting place when Marques suffered an achilles injury whilst on international duty in September, and dropped down the pecking order when he was out injured when Leeds completed the signing of Leigh Bromby.
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Upon his arrival, new manager Gary McAllister offered Marques a new contract but talks stalled with the length of the contract appearing to be the deciding factor in Marques' decision.
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Marques played regularly under Grayson, and began partnering new signing Richard Naylor, but when Sam Sodje was signed on loan Marques lost his place when he suffered an hamstring injury.
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