On 3 January 2009, Dyer made his comeback for West Ham after 17 months out, coming on as a second-half substitute against Barnsley in the FA Cup third round tie at the Boleyn Ground. Dyer's injuries continued in May 2009 when he was ruled out with a hamstring injury. He played in West Ham's first match of the 2009–10 season against Wolverhampton Wanderers, but had problems with injuries after the match. He managed only one more match, away to Blackburn Rovers, before hamstring problems hit again. He returned for two further matches before another injury in September kept him out until returning in a reserve match against Stoke City in November when he scored two goals.