| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 1 | 22 | June-Reg | Jayson Werth | $$ | C | 18 | 5/20/1979 | 6-5 | 210 | R | R | MLB | 2002-2008 | Glenwood High School (Chatham,IL) |
| 1 | 26 | June-Reg | Darnell McDonald | $$ | OF | 18 | 11/17/1978 | 5-11 | 201 | R | R | MLB | 2004-2007 | Cherry Creek High School (Englewood,CO) |
| 1 | 36 | June-Reg | Ntema Ndungidi | $$ | OF | 18 | 3/15/1979 | 6-2 | 199 | L | R | AA | | Edouard Montpetit High School (Montreal,QC) |
| 2 | 73 | June-Reg | Sean Douglass | | P | 18 | 4/28/1979 | 6-6 | 200 | R | R | MLB | 2001-2005 | Antelope Valley High School (Lancaster,CA) |
| 3 | 105 | June-Reg | Matt Riley | | P | 17 | 8/2/1979 | 6-1 | 201 | L | L | MLB | 1999-2005 | Liberty Union High School (Brentwood,CA) |
| 4 | 135 | June-Reg | Shannon Carter | | OF | 18 | 3/23/1979 | 6-0 | 180 | L | L | AAA | | El Reno High School (El Reno,OK) |
| 5 | 165 | June-Reg | Rick Bauer | | P | 20 | 1/10/1977 | 6-6 | 212 | R | R | MLB | 2001-2008 | Treasure Valley Community College |
| 6 | 195 | June-Reg | Caleb Balbuena | | P | 20 | 3/23/1977 | 6-7 | 240 | R | R | A+ | | Cuesta College |
| 7 | 225 | June-Reg | Ricky Casteel | | P | 19 | 10/29/1977 | 6-2 | 190 | R | R | A | | Northeast Texas Community College |
| 8 | 255 | June-Reg | Jay Spurgeon | | P | 20 | 7/5/1976 | 6-6 | 211 | R | R | MLB | 2000-2000 | University of Hawaii-Manoa |
| 9 | 285 | June-Reg | Logan Cuelar | | P | | | | | | | - | | Wharton County Junior College |
| 10 | 315 | June-Reg | David Zwirchitz | | P | 18 | 1/8/1979 | 6-2 | 190 | R | R | - | | East High School (Appleton,WI) |
| 11 | 345 | June-Reg | Jerry Hairston | | SS | 21 | 5/29/1976 | 5-10 | 173 | R | R | MLB | 1998-2008 | Southern Illinois University |
| 12 | 375 | June-Reg | Darren Murphy | | p | 20 | 9/13/1976 | 6-3 | 170 | L | L | A | | Grossmont College |
| 13 | 405 | June-Reg | Mack Haman | | OF | 21 | 12/11/1975 | 6-4 | 205 | R | R | A | | Coastal Carolina University |
| 14 | 435 | June-Reg | Sean Jones | | p | 19 | 4/12/1978 | 6-8 | 215 | R | R | A+ | | Barton High School (Hamilton,ON) |
| 15 | 465 | June-Reg | Jordan Romero | | p | 20 | 10/8/1976 | 6-1 | 170 | R | R | A+ | | De Anza Junior College |
| 16 | 495 | June-Reg | Cliff Wilson | | 3B | 20 | 4/10/1977 | 6-2 | 198 | L | R | Rookie | | Spartanburg Methodist College |
| 17 | 525 | June-Reg | Chris Thogersen | | p | 18 | 2/5/1979 | 6-5 | 210 | R | R | College | | Newbury Park High School (Newbury Park,CA) |
| 18 | 555** | June-Reg | Lance Surridge | | p | 20 | 7/17/1976 | 6-4 | 200 | L | R | A+ | | University of North Carolina-Greensboro |
| 19 | 585 | June-Reg | Jason Ryba | | p | 18 | 10/5/1978 | 6-3 | 190 | R | R | Rookie | | Cuyahoga Heights High School (Cuyahoga Heights,OH) |
| 20 | 615** | June-Reg | Joe Borchard | | 1B | 18 | 11/25/1978 | 6-5 | 220 | B | R | MLB | 2002-2007 | |
| 21 | 645 | June-Reg | Antoine Ide | | OF | 18 | 3/2/1979 | 6-0 | 170 | R | R | A | | Madison High School (Portland,OR) |
| 22 | 675 | June-Reg | Juan Pacheco | | SS | 20 | 11/4/1976 | 6-0 | 170 | R | R | A | | Rutgers University |
| 23 | 705 | June-Reg | Tod Lee | | C | | | | | | | - | | Georgia Southern University |
| 24 | 735 | June-Reg | Jason Taylor | | OF | | | | | | | - | | exists High School (-) |
| 25 | 765** | June-Reg | Roy Wells | | p | 18 | 11/17/1978 | 6-3 | 195 | B | R | A | | Perry Central High School (Hazard,KY) |
| 26 | 795 | June-Reg | D.J. Carrasco | | p | 20 | 4/12/1977 | 6-1 | 215 | R | R | MLB | 2003-2005 | Pima Community College |
| 27 | 825 | June-Reg | Brian Harper | | OF | | | | | | | - | | Hershey High School (Hershey,PA) |
| 28 | 855 | June-Reg | Erick Eigenhuis | | p-1B | 18 | 12/29/1978 | 6-5 | 190 | R | R | College | | Central Valley High School (Veradale,WA) |
| 29 | 885 | June-Reg | Anthony Reed | | p | 18 | 6/18/1979 | 6-2 | 210 | R | R | Rookie | | Eisenhower High School (Lawton,OK) |
| 30 | 915** | June-Reg | Brian Schmitt | | 1B | 18 | 5/16/1979 | 6-2 | 200 | L | L | A | | Monterey High School (Lubbock,TX) |
| 31 | 945** | June-Reg | Terry Byron | | 3B | 18 | 3/28/1979 | 6-0 | 220 | R | R | A+ | | St. Joseph (St. Croix,VI) |
| 32 | 975** | June-Reg | Gavin Wright | | OF | 18 | 5/6/1979 | 6-2 | 175 | R | R | AA | | Lufkin High School (Lufkin,TX) |
| 33 | 1005** | June-Reg | Andy Beal | | p | 18 | 10/31/1978 | 6-2 | 185 | L | L | AAA | | Reidland High School (Paducah,KY) |
| 34 | 1035 | June-Reg | Matt Schwager | | p | 19 | 10/10/1977 | 6-6 | 222 | R | R | A+ | | Indian Hills Community College-Centerville |
| 35 | 1065 | June-Reg | Austin Bilke | | 3B | 17 | 8/13/1979 | 6-2 | 220 | R | R | AA | | Beaver Dam High School (Beaver Dam,WI) |
| 36 | 1095 | June-Reg | Juan Bonilla | | Of | 19 | 5/6/1978 | 6-1 | 200 | R | R | A | | Crestview High School (Crestview,FL) |
| 37 | 1125** | June-Reg | Rod Perry | | Of | 18 | 2/1/1979 | 5-10 | 195 | R | R | A+ | | Mater Dei High School (Santa Ana,CA) |
| 38 | 1155 | June-Reg | Sam Emerick | | p | 19 | 12/6/1977 | 6-4 | 196 | R | R | - | | Lincoln Land Community College |
| 39 | 1185 | June-Reg | Bill Duplissea | | C | 19 | 9/27/1977 | 6-0 | 200 | R | R | AAA | | College of San Mateo |
| 40 | 1215 | June-Reg | Tommy Martin | | SS | 21 | 9/12/1975 | 5-10 | 175 | R | R | Rookie | | Hillsdale College |
| 41 | 1242 | June-Reg | Shawn Curtis | | p | 19 | 5/26/1978 | 6-2 | 190 | R | R | Rookie | | Lexington High School (Lexington,KY) |
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