The 2003 MLS Superdraft was held January 17, 2003 in Kansas City, Missouri. It was the fifth annual SuperDraft held by Major League Soccer.
Player selection
The MetroStars selected Ricardo Clark second overall. A 3x MLS All-Star, he was named to the 2006 MLS Best XI. Clark earned 34 caps with the US Men's National Team and was selected to the 2010 FIFA World Cup squad.
The MetroStars selected Mike Magee 4th overall. in 2013, he was won the Major League Soccer MVP and was named to the MLS Best XI.
San Jose selected Todd Dunivant 6th overall. He was named to the 2011 MLS Best XI.Key
| * | Denotes a player contracted under the Project-40 program |
| ^ | Denotes player who has been selected to an MLS All-Star Game |
| § | Denotes a player who won the MLS Rookie of the Year |
| † | Denotes player who has been selected for an MLS Best XI team |
| ~ | Denotes a player who won the MLS MVP |
Round One
Round one trades
Round Two
The MetroStars selected Eddie Gaven12th overall. He was named to the 2004 MLS Best XI.
The Earthquakes selected Arturo Álvarez 13th overall. With the National Team from El Salvador, he earned 46 caps.Round two trades
Round Three
Round three trades
Round Four
The Chicago Fire selected Rob Friend 35th overall despite him previously signing a contract with Norwegian club Moss FK. He would play in Major League Soccer in 2014. He earned 32 caps with the Canada Men's National Team.Round four trades
Round Five
The Kansas City Wizards selected Jack Jewsbury 43 overall. He was selected to the 2011 MLS All-Star Game.Round five trades
Round Six
Round six trades
Notable undrafted players
| Player | Pos | Affiliation | Played in MLS | Notes |
|---|
| Troy Perkins | GK | University of Evansville | 2004–07; 2010–15 | 7 caps with U.S. national team; 2006 MLS Best XI |