| Pick | Overall | Team | Player | Position | School | State |
| 1 | 1016 | Washington Nationals | Rolando Botello | RHP | Jay HS, San Antonio, Texas | Texas |
| 2 | 1017 | Pittsburgh Pirates | Kelson Brown | SS | Linfield (Ore.) | Ore. |
| 3 | 1018 | Baltimore Orioles | Sammie Starr | SS | British Columbia | British Columbia |
| 4 | 1019 | Kansas City Royals | Mark Blackmar | RHP | Carroll HS, Southlake, Texas | Texas |
| 5 | 1020 | Cleveland Indians | Kyle Petter | LHP | El Camino (Calif.) JC | Calif. |
| 6 | 1021 | Arizona Diamondbacks | Victor Lara | RHP | Keystone (Pa.) | Pa. |
| 7 | 1022 | New York Mets | Justin Schafer | 2B | UC Davis | Calif. |
| 8 | 1023 | Houston Astros | Ryan Cole | RHP | St. John's | N.Y. |
| 9 | 1024 | San Diego Padres | Xavier Esquivel | RHP | Loyola Marymount | Calif. |
| 10 | 1025 | Oakland Athletics | Aaron Larsen | RHP | Bethany (Kan.) | Kan. |
| 11 | 1026 | Toronto Blue Jays | Tyler Powell | RHP | Belmont-Abbey (N.C.) | N.C. |
| 12 | 1027 | Cincinnati Reds | Brandon Dailey | SS | Pauline Johnson SS, Brantford, Ont. | Ontario |
| 13 | 1028 | Chicago White Sox | Dusty Harvard | OF | Oklahoma State | Okla. |
| 14 | 1029 | Milwaukee Brewers | Conor Fisk | RHP | Grafton (Wis.) HS | Wis. |
| 15 | 1030 | Chicago Cubs | Dustin Harrington | 3B | East Carolina | N.C. |
| 16 | 1031 | Tampa Bay Rays | Steve Tinoco | 1B | Long Beach State | Calif. |
| 17 | 1032 | Seattle Mariners | Tyler Whitney | LHP | Mississippi State | Miss. |
| 18 | 1033 | Detroit Tigers | Nolan Sanburn | OF | Kokomo (Ind.) HS | Ind. |
| 19 | 1034 | Atlanta Braves | Matt Fouch | LHP | Army | N.Y. |
| 20 | 1035 | Minnesota Twins | Kyle Necke | RHP | UC Irvine | Calif. |
| 21 | 1036 | Texas Rangers | Kevin Rodland | SS | Nevada | Nev. |
| 22 | 1037 | Florida Marlins | Steve Dennison | LHP | Wheaton (Ill.) | Ill. |
| 23 | 1038 | San Francisco Giants | Johnathan DeBerry | OF | Bethel (Tenn.) | Tenn. |
| 24 | 1039 | St. Louis Cardinals | Matt Valaika | 2B | UC Santa Barbara | Calif. |
| 25 | 1040 | Colorado Rockies | Steve Selsky | OF | Arizona | Ariz. |
| 26 | 1041 | Philadelphia Phillies | Pat Murray | 1B | Lewis-Clark State (Idaho) | Idaho |
| 27 | 1042 | Los Angeles Dodgers | Joe Lincoln | C | Missouri Southern | Mo. |
| 28 | 1043 | Boston Red Sox | Mike Gleason | RHP | Chico State (Calif.) | Calif. |
| 29 | 1044 | Los Angeles Angels | Jerod Yakubik | 1B | Ohio | Ohio |
| 30 | 1045 | New York Yankees | Keenan Kish | RHP | Germantown Academy, Fort Washington, Pa. | Pa. |