| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 1 | 6 | June-Reg | Jeremy Sowers | $$ | P | 21 | 5/17/1983 | 6-1 | 165 | L | L | MLB | 2006-2008 | Vanderbilt University |
| 2 | 47 | June-Reg | Justin Hoyman | $$ | P | 22 | 4/17/1982 | 6-4 | 175 | R | R | A | | University of Florida |
| 3 | 77 | June-Reg | Scott Lewis | $$ | P | 20 | 9/26/1983 | 6-0 | 185 | L | L | AA | | Ohio State University |
| 4 | 107 | June-Reg | Chuck Lofgren | | P | 18 | 1/29/1986 | 6-3 | 190 | L | L | AAA | | Junipero Serra High School (San Mateo,CA) |
| 5 | 137 | June-Reg | Mike Butia | | OF | 21 | 11/29/1982 | 6-2 | 215 | L | R | A+ | | James Madison University |
| 6 | 167 | June-Reg | Cody Bunkelman | | P | 19 | 2/6/1985 | 6-3 | 200 | R | R | A+ | | Itasca Community College |
| 7 | 197 | June-Reg | Mark Jecmen | | P | 21 | 2/16/1983 | 6-8 | 235 | R | R | A | | Stanford University |
| 8 | 227 | June-Reg | Justin Pekarek | | P | 23 | 12/4/1980 | 6-4 | 195 | L | L | AA | | University of Nebraska |
| 9 | 257 | June-Reg | Chris Niesel | | P | 21 | 11/18/1982 | 5-11 | 195 | R | R | AAA | | University of Notre Dame |
| 10 | 287** | June-Reg | Reinaldo Alicano | | OF | | | | | | | - | | Josefina Barcelo High School (Guaynabo,PR) |
| 11 | 317** | June-Reg | Brian Logan | | P | 18 | 4/26/1986 | 5-11 | 185 | L | L | Rookie | | Varina High School (Richmond,VA) |
| 12 | 347** | June-Reg | Jordan Chambless | | P | 19 | 3/7/1985 | 6-1 | 205 | R | R | College | | Calallen High School (Corpus Christi,TX) |
| 13 | 377 | June-Reg | Jason Denham | | OF | 18 | 5/1/1986 | 6-0 | 170 | L | L | A+ | | Deer Valley High School (Antioch,CA) |
| 14 | 407** | June-Reg | Jeff Sues | | P | | | | | | | AA | | Vanderbilt University |
| 15 | 437 | June-Reg | Brian Finegan | | SS | 22 | 12/15/1981 | 6-1 | 185 | R | R | AAA | | University of Hawaii-Manoa |
| 16 | 467 | June-Reg | Josh Williamson | | P | | | | | | | College | | Columbia Basin College |
| 17 | 497 | June-Reg | Marshall Szabo | | 2B | 21 | 2/13/1983 | 5-10 | 180 | B | R | A | | University of Georgia |
| 18 | 527 | June-Reg | Danny Calvert | | P | 19 | 8/16/1984 | 6-5 | 190 | R | R | - | | Hutchinson Community College |
| 19 | 557 | June-Reg | Chris Gimenez | | OF | 21 | 12/27/1982 | 6-2 | 190 | R | R | AA | | University of Nevada |
| 20 | 587 | June-Reg | Derrick Peterson | | 3B | 22 | 5/23/1982 | 6-3 | 190 | R | R | A | | Eastern Michigan University |
| 21 | 617 | June-Reg | Carlton Smith | | P | 18 | 1/23/1986 | 6-1 | 200 | L | R | A+ | | Piscataway High School (Piscataway,NJ) |
| 22 | 647** | June-Reg | Jeff Corsaletti | | OF | 21 | 2/22/1983 | 6-0 | 190 | L | R | AA | | University of Florida |
| 23 | 677 | June-Reg | Michael Storey | | P | 18 | 9/4/1985 | 6-3 | 189 | B | L | Rookie | | Bellevue West High School (Bellevue,NE) |
| 24 | 707 | June-Reg | Wyatt Toregas | | C | 21 | 12/2/1982 | 5-11 | 200 | R | R | AAA | | Virginia Tech |
| 25 | 737 | June-Reg | David Newman | | P | | | | | | | - | | San Jacinto College-North |
| 26 | 767 | June-Reg | Justin Holmes | | SS | 22 | 11/28/1981 | 5-11 | 185 | R | R | A | | University of Georgia |
| 27 | 797 | June-Reg | Adrian Schau | | P | 22 | 1/8/1982 | 6-2 | 200 | R | R | A | | Villanova University |
| 28 | 827 | June-Reg | Doodle Hicks | | P | | | | | | | - | | Virginia High School (Bristol,VA) |
| 29 | 857 | June-Reg | P.J. Hiser | | OF | 22 | 8/18/1981 | 6-1 | 195 | R | R | A | | University of Pittsburgh |
| 30 | 887 | June-Reg | Alfred Ard | | OF | 21 | 8/3/1982 | 6-0 | 185 | R | R | Rookie | | Southern University |
| 31 | 917 | June-Reg | Doug Pickens | | C | 19 | 6/19/1985 | 6-0 | 190 | R | R | A | | Brother Rice High School (Bloomfield Hills,MI) |
| 32 | 947 | June-Reg | Kyle Collins | | P | 22 | 8/17/1981 | 6-1 | 185 | R | R | AA | | University of San Diego |
| 33 | 977 | June-Reg | Paul Lubrano | | P | 22 | 12/19/1981 | 6-1 | 170 | L | L | A+ | | University of Georgia |
| 34 | 1007** | June-Reg | Ashton Shewey | | P | | | | | | | College | | Payson High School (Payson,AZ) |
| 35 | 1037 | June-Reg | Ryan Knippschild | | P | 21 | 9/24/1982 | 6-1 | 195 | L | L | AA | | University of Kansas |
| 36 | 1067** | June-Reg | Jeff Kamrath | | P | 22 | 4/6/1982 | 6-3 | 210 | R | R | AA | | University of Virginia |
| 37 | 1097 | June-Reg | Blake Gill | | 2B | 22 | 10/26/1981 | 5-11 | 190 | L | R | Ind | | Louisiana State University |
| 38 | 1127 | June-Reg | Jose Amaya | | P | 22 | 9/7/1981 | 6-2 | 205 | R | R | AAA | | San Jose State University |
| 39 | 1157 | June-Reg | Preston Clark | | C | 18 | 8/16/1985 | 5-11 | 210 | R | R | College | | Rockwall High School (Rockwall,TX) |
| 40 | 1187 | June-Reg | Dustin Roddy | | P | 21 | 11/10/1982 | 6-2 | 195 | R | R | A | | Nicholls State University |
| 41 | 1217 | June-Reg | David Coulon | | P | 18 | 2/22/1986 | 6-0 | 200 | L | L | College | | Hanford High School (Hanford,CA) |
| 42 | 1246 | June-Reg | Josh Harris | | P | 23 | 11/23/1980 | 6-0 | 205 | R | R | AA | | Lamar University |
| 43 | 1275** | June-Reg | Trevor Mortensen | | OF | 21 | 2/12/1983 | 5-10 | 190 | R | R | A+ | | Santa Ana College |
| 44 | 1304 | June-Reg | Phil Shirek | | P | | | | | | | College | | University of Nebraska |
| 45 | 1333 | June-Reg | Tony Sipp | | P | 20 | 7/12/1983 | 6-0 | 185 | L | L | AA | | Clemson University |
| 46 | 1362 | June-Reg | Chris Sosa | | OF | | | | | | | - | | West Hills College |
| 47 | 1391 | June-Reg | Tyler Beranek | | 1B | | | | | | | College | | Waukesha South High School (Waukesha,WI) |
| 48 | 1420 | June-Reg | Brian Winings | | P | 21 | 11/6/1982 | 6-2 | 195 | R | R | Ind | | University of Pennsylvania |
| 49 | 1448 | June-Reg | Jose Chavez | | SS | 19 | 1/2/1985 | 5-10 | 170 | B | R | AAA | | Santa Ana College |
| 50 | 1476 | June-Reg | Tim Battaglia | | P | | | | | | | College | | University of Minnesota Duluth |
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