| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 1 | 21 | June-Reg | Brad Hennessey | $$ | P | 21 | 2/7/1980 | 6-2 | 185 | R | R | MLB | 2004-2008 | Youngstown State University |
| 1 | 30 | June-Reg | Noah Lowry | $$ | P | 20 | 10/10/1980 | 6-2 | 190 | L | L | MLB | 2003-2007 | Pepperdine University |
| 1 | 41 | June-Reg | Todd Linden | $$ | OF | 21 | 6/30/1980 | 6-2 | 215 | B | R | MLB | 2003-2007 | Louisiana State University |
| 2 | 74 | June-Reg | Jesse Foppert | $$ | P | 20 | 7/10/1980 | 6-6 | 210 | R | R | MLB | 2003-2005 | University of San Francisco |
| 3 | 106 | June-Reg | Julian Benavidez | | IF | 19 | 4/14/1982 | 6-2 | 200 | R | R | AA | - | Diablo Valley College |
| 4 | 136 | June-Reg | Josh Cram | | P | 20 | 8/22/1980 | 6-2 | 200 | R | R | A+ | | Clemson University |
| 5 | 166 | June-Reg | Justin Knoedler | | P | 20 | 7/17/1980 | 6-2 | 205 | R | R | MLB | 2004-2006 | Miami University (Ohio) |
| 6 | 196 | June-Reg | David Cash | | P | 21 | 7/25/1979 | 6-1 | 180 | R | R | AAA | | University of California |
| 7 | 226 | June-Reg | Jamie Athas | | IF | 21 | 10/14/1979 | 6-2 | 190 | L | R | AAA | | Wake Forest University |
| 8 | 256 | June-Reg | Jason Waddell | | P | 20 | 6/11/1981 | 6-2 | 170 | R | L | AA | | Riverside Community College |
| 9 | 286** | June-Reg | Terry Large | | P | 18 | 5/28/1983 | 6-4 | 185 | R | R | AAA | | Seminole High School (Seminole,FL) |
| 10 | 316 | June-Reg | Wes Hutchison | | P | 22 | 5/31/1979 | 6-1 | 195 | R | R | AAA | | Lewis-Clark State College |
| 11 | 346 | June-Reg | Derin McMains | | IF | 21 | 11/3/1979 | 6-0 | 180 | B | R | AAA | | University of Arkansas-Little Rock |
| 12 | 376 | June-Reg | Alberto Montez | | P | | | | 0 | | | - | | University of Texas |
| 13 | 406 | June-Reg | Juan Serrato | | P | 19 | 11/4/1981 | 6-2 | 175 | R | R | A+ | | Riverside Community College |
| 14 | 436** | June-Reg | Jeffrey Timmons | | C | 18 | 10/2/1982 | 6-1 | 195 | R | R | A- | | Nova High School (Davie,FL) |
| 15 | 466 | June-Reg | Tyler Von Schell | | IF | 21 | 7/7/1979 | 6-3 | 215 | R | R | AAA | | University of California-Santa Barbara |
| 16 | 496 | June-Reg | Craig James | | P | 18 | 3/10/1983 | 6-1 | 170 | R | R | AA | | Miami Killian High School (Miami,FL) |
| 17 | 526 | June-Reg | Steve Holm | | C | 21 | 10/21/1979 | 6-0 | 195 | R | R | MLB | 2008-2008 | Oral Roberts University |
| 18 | 556 | June-Reg | Dayton Buller | | C | 20 | 6/22/1981 | 6-0 | 190 | R | R | AAA | | Freed-Hardeman University (Tenn.) |
| 19 | 586 | June-Reg | Robbie Meyer | | OF | 22 | 12/15/1978 | 6-2 | 195 | R | R | A | | University of California |
| 20 | 616** | June-Reg | Richard Giannotti | | OF | 17 | 8/9/1983 | 6-3 | 180 | R | R | A | | St. Thomas Aquinas High School (Fort Lauderdale,FL) |
| 21 | 646 | June-Reg | Miguel Miranda | | IF | 22 | 6/10/1979 | 6-0 | 175 | B | R | A | | University of Arkansas |
| 22 | 676 | June-Reg | Karl Jernigan | | OF | 22 | 4/15/1979 | 6-2 | 195 | R | R | A | | Florida State University |
| 23 | 706 | June-Reg | Petersen Benjamin | | P | 22 | 10/2/1978 | 6-4 | 210 | R | R | A | | Florida Atlantic University |
| 24 | 736 | June-Reg | Peter Healey | | P | | | | 0 | | | - | | |
| 25 | 766 | June-Reg | Ryan Meaux | | P | 22 | 10/5/1978 | 5-11 | 170 | B | L | AAA | | Lamar Community College |
| 26 | 796** | June-Reg | Bobby Wilson | | C | 18 | 4/8/1983 | 6-0 | 205 | R | R | MLB | 2008-2008 | Seminole High School (Seminole,FL) |
| 27 | 826 | June-Reg | Keith Anderson | | C | 22 | 1/6/1979 | 6-1 | 205 | R | R | AAA | | Cal Poly |
| 28 | 856 | June-Reg | David Hixson | | P | 22 | 9/13/1978 | 6-1 | 195 | R | R | A | | Gonzaga University |
| 29 | 886 | June-Reg | Matt Huntingford | | OF | 22 | 3/5/1979 | 6-1 | 170 | L | L | A | | Florida International University |
| 30 | 916 | June-Reg | Joe Mercer | | | | | | | | | Ind | | American River College |
| 31 | 946 | June-Reg | Chris Ciesluk | | 3B | 18 | 2/6/1983 | 6-2 | 210 | R | R | A+ | | Taunton High School (Taunton,MA) |
| 32 | 976 | June-Reg | Brian Stirm | | P | 19 | 3/13/1982 | 6-6 | 200 | R | R | A+ | | West Valley College |
| 33 | 1006 | June-Reg | R.D. Spiehs | | P | 21 | 10/18/1979 | 6-3 | 210 | R | R | AAA | | University of Nebraska |
| 34 | 1036 | June-Reg | Aaron Hornostaj | | IF-OF | 18 | 5/19/1983 | 6-1 | 180 | L | R | AAA | | St. Thomas of Villanova High School (LaSalle,ON) |
| 35 | 1066** | June-Reg | Chris Hamblen | | C | 21 | 2/17/1980 | 6-1 | 190 | B | R | A+ | | University of Cincinnati |
| 36 | 1096** | June-Reg | Matt Hopper | | 1B | 21 | 11/6/1979 | 6-4 | 210 | R | R | A | | University of Nebraska |
| 37 | 1126 | June-Reg | Todd Mittauer | | | | | | | | | College | | Dade Christian High School (Hialeah,FL) |
| 38 | 1156 | June-Reg | Lamont Jordan | | 2B | | | 6-0 | 175 | R | R | - | | Dinwiddie County High School (Dinwiddie,VA) |
| 39 | 1186** | June-Reg | Matthew Somnis | | P | | | | 0 | | | - | | Tumwater High School (Tumwater,WA) |
| 40 | 1215 | June-Reg | Ruddy Garcia | | P | 17 | 8/1/1983 | 6-2 | 170 | R | R | Rookie | | Lake Worth High School (Lake Worth,FL) |
| 41 | 1244 | June-Reg | Austin Allen | | SS | 19 | 10/19/1981 | 5-9 | 175 | R | R | - | | Mount Hood Community College |
| 42 | 1272** | June-Reg | P.J. Hiser | | P | 19 | 8/18/1981 | 6-1 | 195 | R | R | A | | Hagerstown Community College |
| 43 | 1300 | June-Reg | Kevin Bulger | | SS | 18 | 2/16/1983 | 6-4 | 195 | R | R | Rookie | | Brookwood High School (Snellville,GA) |
| 44 | 1328 | June-Reg | Jon Williams | | C | 22 | 5/18/1979 | 5-10 | 190 | L | R | AA | | University of Missouri |
| 45 | 1356** | June-Reg | Karl Amonite | | | | | | | | | College | | Connors State College |
| 46 | 1384 | June-Reg | Mike Adcock | | P | 18 | 5/10/1983 | 6-1 | 180 | R | R | - | | Lebanon High School (Watertown,TN) |
| 47 | 1411 | June-Reg | Scott Munter | | P | 21 | 3/7/1980 | 6-6 | 235 | R | R | MLB | 2005-2007 | Butler County Community College |
| 48 | 1437** | June-Reg | Paul O'Toole | | C | 21 | 2/24/1980 | 6-1 | 220 | L | R | AA | | University of Notre Dame |
| 49 | 1462** | June-Reg | Brian Bulger | | P | 20 | 12/2/1980 | 6-4 | 200 | R | R | A | | South Georgia College |
| 50 | 1485 | June-Reg | P.J. Mcginnis | | | 20 | 8/13/1980 | 5-11 | 180 | R | R | College | | Central Missouri State University |
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