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| | 2 | 57 | Jon Lester | | P | 18 | 1/7/1984 | 6-3 | 200 | L | L | MLB | 2006-2007 | Bellarmine Prep High School (Tacoma,WA) |
| | 3 | 88 | Scott White | | 3B | 18 | 10/18/1983 | 6-3 | 190 | R | R | A+ | | Walton High School (Marietta,GA) |
| | 4 | 118 | Chris Smith | | P | 21 | 4/9/1981 | 6-2 | 191 | R | R | AAA | | University of California-Riverside |
| | 5 | 148 | Chad Spann | | 3B | 18 | 10/25/1983 | 6-1 | 190 | R | R | AAA | | Southland Academy High School (Americus,GA) |
| | 6 | 178** | Gary Browning | | P | | | | 0 | | | - | | Wayne County High School (Jesup,GA) |
| | 7 | 208** | Jason Neighborgall | | P | 18 | 12/19/1983 | 6-5 | 212 | R | R | A | | Riverside High School (Durham,NC) |
| | 8 | 238 | Brandon Moss | | 2B | 18 | 9/16/1983 | 6-0 | 180 | L | R | MLB | 2007-2007 | Loganville High School (Loganville,GA) |
| | 9 | 268 | Tyler Pelland | | P | 18 | 10/9/1983 | 6-0 | 190 | R | L | AAA | | Mount Abraham High School (Bristol,VT) |
| | 10 | 298 | Greg Stone | | IF | 21 | 2/19/1981 | 6-0 | 180 | R | R | A+ | | Bacone College (Okla.) |
| | 11 | 328 | Mike Goss | | OF | 21 | 9/26/1980 | 5-11 | 185 | L | R | AA | | Jackson State University |
| | 12 | 358** | Dustin Majewski | | OF | 20 | 8/16/1981 | 5-11 | 190 | L | L | AA | | University of Texas |
| | 13 | 388 | Clay Stone | | P | | | | 0 | | | - | | Ruston High School (Ruston,LA) |
| | 14 | 418 | John Priola | | P | 22 | 9/30/1979 | 6-3 | 190 | R | R | A | | Faulkner University (Ala.) |
| | 15 | 448 | Ian Cronkhite | | OF | 18 | 8/11/1983 | 6-1 | 180 | L | L | AA | | Westmoore High School (Oklahoma City,OK) |
| | 16 | 478 | Peter Ciofrone | | 2B | 18 | 9/28/1983 | 5-11 | 190 | L | R | AAA | | Smithtown High School (Nesconset,NY) |
| | 17 | 508 | Arian Alcala | | 3B | 22 | 10/7/1979 | 6-2 | 205 | R | R | A | | St Thomas (St Thomas) |
| | 18 | 538 | Robert Smith | | OF | | | | 0 | | | - | | Southeast Missouri State University |
| | 19 | 568 | Tom MacLane | | P | 22 | 2/2/1980 | 5-11 | 170 | L | L | A | | Florida Atlantic University |
| | 20 | 598 | Luis Villarreal | | P | 22 | 12/20/1979 | 6-1 | 208 | L | L | AAA | | Northwood University |
| | 21 | 628 | Alberto Concepcion | | C-3B | 21 | 4/18/1981 | 6-1 | 220 | R | R | AAA | | USC |
| | 22 | 658 | John Anderson | | | | | | | | | College | | Arkansas State University |
| | 23 | 688 | Dave Pahucki | | P | 21 | 10/17/1980 | 6-2 | 200 | R | R | AA | | Siena College |
| | 24 | 718 | Patrick Boran | | IF | 21 | 8/8/1980 | 6-2 | 200 | R | R | A+ | - | Princeton University |
| | 25 | 748 | Jim Buckley | | C | 22 | 9/14/1979 | 6-1 | 230 | R | R | AAA | | Siena College |
| | 26 | 778** | Adam Davis | | P | 18 | 9/18/1983 | 6-3 | 200 | R | R | - | | Metter High School (Pulaski,GA) |
| | 27 | 808 | Mike Armstrong | | P | | | | | | | - | | Chabot College |
| | 28 | 838 | Mike Barclay | | OF | 22 | 8/6/1979 | 6-3 | 177 | R | R | A+ | | University of South Florida |
| | 29 | 868** | Matt Clarkson | | C | 18 | 2/24/1984 | 6-1 | 190 | L | R | A- | | Broken Arrow High School (Broken Arrow,OK) |
| | 30 | 898 | Jonathan Williams | | P | | | | 0 | | | - | | Opelika High School (Opelika,AL) |
| | 31 | 928 | Steve Boggs | | CF | 18 | 2/29/1984 | 5-10 | 170 | R | R | A- | | San Diego High School (San Diego,CA) |
| | 32 | 958 | Brock Hunton | | P | | | | 0 | | | - | | Dublin Coffman High School (Dublin,OH) |
| | 33 | 988 | Luke Taylor | | P | | | | 0 | | | - | | Lowndes County High School (Valdosta,GA) |
| | 34 | 1018** | Mitchell Woolf | | P | 18 | 2/18/1984 | 6-3 | 170 | R | R | College | | Madison High School (Rexburg,ID) |
| | 35 | 1048 | Jose Vaquedano | | P | 20 | 7/9/1981 | 6-4 | 175 | R | R | AA | | Vernon College |
| | 36 | 1078** | Don Powers | | P | 18 | 9/21/1983 | 6-4 | 175 | R | R | - | | Shawnee High School (Shawnee,OK) |
| | 37 | 1108** | Ricky Romero | | P | 17 | 11/6/1984 | 6-1 | 195 | R | L | AA | | Roosevelt High School (Los Angeles,CA) |
| | 38 | 1138** | Koley Kolberg | | P | 19 | 11/26/1982 | 6-1 | 176 | R | R | A | | Navarro College |
| | 39 | 1168** | Tyler Jacobson | | P | 19 | 5/5/1983 | 6-2 | 205 | R | R | A- | | Auburn Riverside High School (Auburn,WA) |
| | 40 | 1198** | Dustin Roddy | | C | 19 | 11/10/1982 | 6-2 | 195 | R | R | A | | Northeast Texas Community College |
| | 41 | 1228** | Matt Inouye | | | 18 | 5/20/1984 | 5-10 | 165 | R | R | Rookie | | Mid Pacific Institute High School (Honolulu,HI) |
| | 42 | 1258** | Rosalino Valenzuela | | P | 18 | 4/22/1984 | 6-2 | 165 | R | R | - | | Marcos de Niza High School (Tempe,AZ) |
| | 43 | 1287 | Lance Schartz | | C | 19 | 1/26/1983 | 6-0 | 215 | R | R | A | | Garden City Community College |
| | 44 | 1315 | David Baker | | C | | | | 0 | | | - | | Rogers High School (Puyallup,WA) |
| | 45 | 1342** | Brian Bannister | | P | 21 | 2/28/1981 | 6-1 | 207 | R | R | MLB | 2006-2007 | USC |
| | 46 | 1369 | Douglas Harris | | P | | | | 0 | | | - | | Lone Oak High School (Paducah,Ky) |
| | 47 | 1395 | Anthony Bianucci | | OF | 21 | 4/25/1981 | 5-11 | 180 | B | R | Rookie | | Daytona Beach Community College |
| | 48 | 1421 | Sergio Roman | | C | | | | 0 | | | - | | Allen County Community College |
| | 49 | 1447 | Robert Caruso | | 1B | | | | 0 | | | - | | Chaminade-Madonna High School (Hollywood,FL) |
| | 50 | 1471 | Seth Dhaenens | | SS | 18 | 5/20/1984 | 6-2 | 175 | L | R | A | | Mountain Pointe High School (Phoenix,AZ) |
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