| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 1 | 2 | June-Reg | Josh Beckett | $$ | P | 19 | 5/15/1980 | 6-4 | 190 | R | R | MLB | 2001-2008 | Spring High School (Spring,TX) |
| 2 | 53 | June-Reg | Terry Byron | $$ | P | 20 | 3/28/1979 | 6-0 | 220 | R | R | A+ | | Indian River Community College |
| 3 | 86 | June-Reg | Josh Wilson | | SS | 18 | 3/26/1981 | 6-0 | 161 | R | R | MLB | 2005-2007 | Mount Lebanon High School (Pittsburgh,PA) |
| 4 | 116 | June-Reg | Dominic Woody | | C | 20 | 8/17/1978 | 6-3 | 210 | R | R | A+ | | University of Washington |
| 5 | 146 | June-Reg | Nate Robertson | | P | 21 | 9/3/1977 | 6-2 | 215 | L | R | MLB | 2002-2008 | Wichita State University |
| 6 | 176 | June-Reg | Charles Frazier | $$ | OF | 18 | 7/6/1980 | 6-3 | 185 | R | R | AA | | Toms River South High School (Toms River,NJ) |
| 7 | 206 | June-Reg | Jacob Laidlaw | | OF | 17 | 10/5/1981 | 6-2 | 190 | R | R | A- | | Cheyenne High School (North Las Vegas,NV) |
| 8 | 236 | June-Reg | Kevin Hooper | | IF | 22 | 12/7/1976 | 5-9 | 155 | R | R | MLB | 2005-2006 | Wichita State University |
| 9 | 266 | June-Reg | Ben Hickman | | P | 22 | 11/10/1976 | 6-0 | 240 | R | R | A | | Louisiana Tech University |
| 10 | 296 | June-Reg | Scott Goodman | | LF | 21 | 8/15/1977 | 6-1 | 210 | L | L | A+ | | Arizona State University |
| 11 | 326 | June-Reg | Randy Messenger | | P | 17 | 8/13/1981 | 6-3 | 239 | R | R | MLB | 2005-2007 | Sparks High School (Sparks,NV) |
| 12 | 356** | June-Reg | Angel Sanchez | | 2B | 15 | 9/20/1983 | 6-1 | 170 | R | R | MLB | 2006-2006 | Vineland High School (Vineland,NJ) |
| 13 | 386 | June-Reg | Bryan Moore | | P | 22 | 9/6/1976 | 6-8 | 215 | R | R | A | | University of Houston |
| 14 | 416 | June-Reg | Todd Moser | | P | 22 | 10/28/1976 | 6-5 | 180 | L | L | AA | | Florida Atlantic University |
| 15 | 446 | June-Reg | Barry Schell | | LF | 21 | 11/19/1977 | 6-2 | 210 | L | L | A- | | Palomar College |
| 16 | 476 | June-Reg | Jared Wykoff | | P | 18 | 9/29/1980 | 6-5 | 190 | R | R | Ind | | Kinder High School (Kinder,LA) |
| 17 | 506 | June-Reg | Brad Haynes | | P | 17 | 9/29/1981 | 6-5 | 187 | R | R | A+ | | Barren County High School (Glasgow,KY) |
| 18 | 536 | June-Reg | Dave Johnston | | P | 18 | 4/27/1981 | 6-3 | 190 | R | R | A+ | | Marshalltown High School (Marshalltown,IA) |
| 19 | 566 | June-Reg | Kevin Perkins | | 2B | 21 | 8/2/1977 | 6-2 | 185 | R | R | A+ | | University of California-Riverside |
| 20 | 596 | June-Reg | Shane Smuin | | P | | | 6-2 | 205 | R | R | A+ | | Utah Valley State College |
| 21 | 626 | June-Reg | Joe Sergent | | P | 20 | 8/29/1978 | 6-0 | 185 | L | L | AA | | Lamar University |
| 22 | 656 | June-Reg | James Close | | CF | 21 | 10/18/1977 | 5-10 | 165 | R | R | A+ | | UNLV |
| 23 | 686** | June-Reg | Jarrod Schmidt | | OF | 18 | 10/2/1980 | 6-2 | 200 | R | R | A | | Lassiter High School (Marietta,GA) |
| 24 | 716 | June-Reg | Bryan Morse | | P | 21 | 9/12/1977 | 5-11 | 160 | L | L | A+ | | Mount Olive College |
| 25 | 746 | June-Reg | Dennis Anderson | | C | 21 | 2/1/1978 | 6-0 | 200 | B | R | AA | | University of Arizona |
| 26 | 776 | June-Reg | Keith Herbert | | SS | | | | 0 | | | Rookie | | Boonsboro High School (Boonsboro,MD) |
| 27 | 806 | June-Reg | Tom Bell | | P | 18 | 1/5/1981 | 6-0 | 185 | R | R | A- | | George C. Marshall High School (Falls Church,VA) |
| 28 | 836 | June-Reg | William Ward | | P | | | | 0 | | | - | | Texas A&M University |
| 29 | 866 | June-Reg | Matt Postell | | C | 22 | 1/10/1977 | 6-4 | 187 | L | R | A | - | North Carolina State University |
| 30 | 896 | June-Reg | Brandon Bowe | | P | 23 | 3/13/1976 | 6-3 | 215 | R | R | AA | | Louisiana State University |
| 31 | 926 | June-Reg | Kenny Riley | | C | 19 | 4/15/1980 | 6-2 | 200 | R | R | A- | | Reed High School (Sparks,NV) |
| 32 | 956** | June-Reg | Dustin Griffith | | P | 18 | 9/16/1980 | 6-4 | 190 | R | R | AAA | | Dakota Ridge High School (Littleton,CO) |
| 33 | 986 | June-Reg | Mike Flannery | | P | 19 | 9/20/1979 | 6-1 | 205 | R | R | AAA | | Gloucester County College |
| 34 | 1016 | June-Reg | John Moylan | | C | | | | 0 | | | - | | Canada College |
| 35 | 1046 | June-Reg | Enrique Mendieta | | CF | 19 | 8/22/1979 | 6-0 | 175 | R | R | Rookie | | Norfolk State University |
| 36 | 1076 | June-Reg | Kevin Snowden | | CF | | | | 0 | | | - | | Roosevelt High School (Greenbelt,MD) |
| 37 | 1106 | June-Reg | Derek Caraway | | P | | | | 0 | | | College | | Andalusia High School (Andalusia,AL) |
| 38 | 1136 | June-Reg | Robert Glaser | | RF | | | | 0 | | | - | | San Joaquin Delta College |
| 39 | 1166 | June-Reg | Chance Scott | | SS | | | | 0 | | | - | | Pleasant Grove High School (Pleasant Grove,UT) |
| 40 | 1196 | June-Reg | Matt Krabbe | | | | | | | | | College | | Triton College |
| 41 | 1226 | June-Reg | Jeff Nichols | | | | | | | | | College | | Rice University |
| 42 | 1254** | June-Reg | Adam LaRoche | | 1B | 19 | 11/6/1979 | 6-3 | 180 | L | L | MLB | 2004-2008 | Fort Scott Community College |
| 43 | 1281 | June-Reg | Darin Phalines | | P | | | | 0 | | | - | | Gloucester County College |
| 44 | 1308 | June-Reg | Alonso Gomez | | 3B | | | | 0 | | | - | | College (OF,San Mateo) |
| 45 | 1335** | June-Reg | John Anderson | | | | | | | | | College | | Pine Bluff High School (Pine Bluff,AR) |
| 46 | 1360 | June-Reg | Ben Vannatter | | | | | | | | | College | | Amelia High School (Amelia,OH) |
| 47 | 1384 | June-Reg | Jacob Robertson | | CF | | | | 0 | | | - | | Twin Falls High School (Twin Falls,ID) |
| 48 | 1408 | June-Reg | Quian Davis | | LF | | | | 0 | | | Rookie | | |
| 49 | 1432 | June-Reg | John Zamora | | P | 21 | 11/12/1977 | 6-3 | 220 | R | R | - | | Cabrillo College |
| 50 | 1455** | June-Reg | Anthony Aceves | | CF | | | | 0 | | | - | | Howard High School (Ellicott City,MD) |
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