| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 2 | 71 | June-Reg | Brandon Weeden | | P | 18 | 10/14/1983 | 6-4 | 190 | R | R | A+ | | Edmond Santa Fe High School (Edmond,OK) |
| 4 | 126 | June-Reg | Alan Bomer | | P | 22 | 1/31/1980 | 6-3 | 200 | R | R | A- | | University of Texas |
| 5 | 156 | June-Reg | Matt Carson | | OF | 20 | 7/1/1981 | 6-2 | 200 | R | R | AAA | | Brigham Young University |
| 6 | 186 | June-Reg | Brandon Harmsen | | P | 20 | 12/13/1981 | 6-3 | 200 | R | R | A+ | | Grand Rapids Community College |
| 7 | 216 | June-Reg | Ross Michelsen | | 1B | 18 | 2/2/1984 | 6-4 | 190 | L | L | Rookie | | Lamar High School (Arlington,TX) |
| 8 | 246 | June-Reg | Brad Halsey | | P | 21 | 2/14/1981 | 6-1 | 180 | L | L | MLB | 2004-2006 | University of Texas |
| 9 | 276 | June-Reg | Eric Verbryke | | OF | 20 | 8/6/1981 | 6-2 | 220 | L | L | AA | | Cal State Northridge |
| 10 | 306 | June-Reg | Gary Bell | | P | 22 | 9/14/1979 | 6-1 | 190 | L | L | A+ | | University of South Carolina |
| 11 | 336 | June-Reg | Marcus McClanahan | | CF | | | | 0 | | | - | | University of Alabama |
| 12 | 366 | June-Reg | Matt Mamula | | IF | 22 | 2/10/1980 | 6-2 | 200 | L | L | A- | | Point Loma Nazarene University (Calif.) |
| 13 | 396 | June-Reg | Blake Blase | | IF | 21 | 1/31/1981 | 6-3 | 225 | L | R | A | | Jefferson College |
| 14 | 426 | June-Reg | Ray Clark | | P | 21 | 10/27/1980 | 6-2 | 185 | R | R | A+ | | University of Texas |
| 15 | 456 | June-Reg | Phillip Tribe | | P | 22 | 10/15/1979 | 6-5 | 210 | R | R | A- | | Rice University |
| 16 | 486 | June-Reg | Jared Koutnik | | IF | 22 | 11/9/1979 | 6-3 | 190 | R | R | AA | | Michigan State University |
| 17 | 516 | June-Reg | Gabe Lopez | | IF | 22 | 3/11/1980 | 5-8 | 170 | R | R | AAA | - | San Jose State University |
| 18 | 546 | June-Reg | Luis Robles | | C | 20 | 3/2/1982 | 6-4 | 180 | R | R | A+ | | Riverside Community College |
| 19 | 576 | June-Reg | Jon Sheaffer | | OF | 22 | 2/8/1980 | 6-1 | 185 | R | R | A- | | Arizona State University |
| 20 | 606 | June-Reg | Ben King | | P | 21 | 12/10/1980 | 6-1 | 190 | L | L | A- | | University of Texas |
| 21 | 636 | June-Reg | Hector Zamora | | 3B | 20 | 10/19/1981 | 6-1 | 210 | L | R | A+ | | San Jose State University |
| 22 | 666 | June-Reg | Skyler Fulton | | CF | 20 | 6/17/1982 | 6-1 | 210 | B | R | - | | Skagit Valley College |
| 23 | 696 | June-Reg | Eric Hacker | | P | 19 | 3/26/1983 | 6-1 | 210 | B | R | AAA | | Duncanville High School (Duncanville,TX) |
| 24 | 726 | June-Reg | Dane De la Rosa | | P | 19 | 2/1/1983 | 6-6 | 220 | R | R | A- | | Riverside Community College |
| 25 | 756 | June-Reg | Josh Neitz | | P | 22 | 7/21/1979 | 6-1 | 180 | R | R | A | | Saint Leo University |
| 26 | 786 | June-Reg | Phillip Coke | | P | 19 | 7/19/1982 | 6-1 | 210 | L | L | AAA | | San Joaquin Delta College |
| 27 | 816 | June-Reg | Michael Knox | | P | 18 | 9/19/1983 | 6-4 | 195 | R | R | A+ | | Jesuit Prep High School (Plano,TX) |
| 28 | 846 | June-Reg | Nathan Kopp | | P | 22 | 3/26/1980 | 6-0 | 205 | R | L | A- | | Wright State University |
| 29 | 876 | June-Reg | Charlie Isaacson | | P | 22 | 5/5/1980 | 6-2 | 190 | R | R | AAA | | University of Arkansas |
| 30 | 906 | June-Reg | Kyle Marlatt | | P | | | | | | | College | | San Jacinto College-North |
| 31 | 936 | June-Reg | Paul Thorp | | P | 21 | 9/23/1980 | 6-1 | 200 | R | R | AA | | Baylor University |
| 32 | 966 | June-Reg | Justin Meccage | | P | 21 | 11/25/1980 | 6-5 | 220 | R | R | A- | | Oklahoma State University |
| 33 | 996 | June-Reg | David Smith | | P | | | | 0 | | | - | | Parkland College |
| 34 | 1026 | June-Reg | Nathan Bowden | | IF | 22 | 9/23/1979 | 6-3 | 200 | R | R | A- | | University of North Alabama |
| 35 | 1056 | June-Reg | Mike Brown | | P | | | | 0 | | | - | | Owasso High School (Owasso,OK) |
| 36 | 1086 | June-Reg | Doug Boone | | C | 23 | 5/16/1979 | 6-1 | 200 | R | R | AA | | Ball State University |
| 37 | 1116 | June-Reg | Richard Cowan | | P | 19 | 5/24/1983 | 6-2 | 200 | R | R | Rookie | | Navarro College |
| 38 | 1146** | June-Reg | Justin Keadle | | P | 19 | 12/6/1982 | 6-2 | 211 | R | R | A- | | Cypress College |
| 39 | 1176 | June-Reg | Randy Gattis | | | 18 | 6/23/1984 | 6-2 | 182 | R | R | College | | Mesquite High School (Mesquite,TX) |
| 40 | 1206 | June-Reg | Joe Difranco | | P | 23 | 10/10/1978 | 6-1 | 180 | R | R | A | | St Thomas (FL) |
| 41 | 1236 | June-Reg | Michael Miehls | | C | | | | 0 | | | - | | Tennessee Technological University |
| 42 | 1266 | June-Reg | Matt Goodson | | | 18 | 5/20/1984 | 5-11 | 195 | | R | College | | Galveston College |
| 43 | 1295 | June-Reg | Jason Maes | | P | | | | 0 | | | - | | Folsom High School (Folsom,TX) |
| 44 | 1323 | June-Reg | Matt Brumit | | P | 22 | 10/28/1979 | 6-4 | 220 | R | R | A+ | | Youngstown State University |
| 45 | 1350 | June-Reg | Matt Yost | | | | | | | | | College | | Elk City High School (Elk City,OK) |
| 46 | 1377 | June-Reg | Jared Treadway | | OF | 22 | 12/21/1979 | 6-0 | 180 | R | R | A | - | Wooster High School (Wooster,OH) |
| 47 | 1403 | June-Reg | Ryan Jennings | | P | | | | 0 | | | - | | James Monroe High School (Greenville,WV) |
| 48 | 1429** | June-Reg | Bill Carnline | | P | 18 | 1/3/1984 | 6-3 | 190 | R | R | A+ | | New Caney High School (New Caney,TX) |
| 49 | 1454 | June-Reg | Levi Dartt | | P | | | | 0 | | | - | | Denton High School (Denton,TX) |
| 50 | 1478 | June-Reg | Arthur Christal | | CF | | | | 0 | | | College | | Ennis High School (Ennis,TX) |
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