Reyes was spotted by New York Mets scouts during a tryout camp in Santiago in the summer of 1999. After initial concerns over Reyes' slight frame, the Mets offered him a contract, which he signed on August 16, 1999. Despite traditionally sending youngsters to play in their Dominican academy, the Mets made an exception with Reyes and sent him to the Kingsport Mets of the Rookie-level Appalachian League for the 2000 season. He finished the season with a .250 batting average in 49 games.