| Year | Rnd | Ovl | Phase | Player | Drafting Team | Pos | HiLvl | Played | Src | Drafted From | SF | State | AB | 2B | 3B | HR | RBI | SB | BAVG | W | L | ERA | SV | IP | SO | GS |
| 2006 | 45 | 1334 | June-Reg | Eric Martinez | Kansas City Royals | P | - | C | Southwestern Community College | SF | NC | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1335 | June-Reg | James Manning | Colorado Rockies | P | - | C | Wallace State Community College | SF | AL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1336 | June-Reg | Christopher Wilson ** | Tampa Bay Rays | P | AA | 2008-2012 | C | Trinidad State Junior College | SF | CO | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1337 | June-Reg | Paul-Michael Klingsberg ** | Pittsburgh Pirates | 1B | RK | 2007-2009 | H | Notre Dame (Sherman Oaks,CA) | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1338 | June-Reg | Jeremy Camacho | Seattle Mariners | SS | - | H | Eagle Rock (Los Angeles,CA) | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1339 | June-Reg | Lance Durham ** | Detroit Tigers | LF | A+ | 2009-2013 | H | Roger Bacon (Cincinnati,OH) | SF | OH | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1340 | June-Reg | Greg Hendrix | Los Angeles Dodgers | P | Ind | 2009-2012 | H | North Atlanta (Atlanta,GA) | SF | GA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1341 | June-Reg | Mike Lachapelle | Cincinnati Reds | P | NCAA | 2008-2010 | H | Sahuaro (Tucson,AZ) | SF | AZ | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1342 | June-Reg | Isaiah Stanback | Baltimore Orioles | CF | - | C | University of Washington | SF | WA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1343 | June-Reg | Matt Speake | San Francisco Giants | P | RK | 2006-2010 | C | New Mexico Junior College | SF | NM | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1344 | June-Reg | Clayton Conner | Arizona Diamondbacks | 3B | A | 2007-2009 | C | Northwest Florida State College | SF | FL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1345 | June-Reg | Danny Ray Herrera | Texas Rangers | P | MLB | 2004-2012 | C | University of New Mexico | SF | NM | 3 | 0 | 0 | 0 | 0 | 0 | .000 | 5 | 8 | 3.72 | 0 | 102 | 71 | 0 |
| 2006 | 45 | 1346 | June-Reg | Elliott Shea | Chicago Cubs | CF | Ind | 2006-2006 | C | Franklin Pierce University | SF | NH | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1347 | June-Reg | Lee Verweel | Toronto Blue Jays | P | - | H | Malvern (Toronto,ON) | SF | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | ||
| 2006 | 45 | 1348 | June-Reg | Adam Kramer | Washington Nationals | P | Ind | 2006-2011 | C | New Mexico Junior College | SF | NM | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1349 | June-Reg | Matt Thompson | Milwaukee Brewers | SS | NCAA | 2009-2009 | H | Aztec (Aztec,NM) | SF | NM | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1350 | June-Reg | Bryce Lefebvre | San Diego Padres | 3B | NCAA | 2008-2008 | C | Scottsdale Community College | SF | AZ | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1351 | June-Reg | Beau Pender | New York Mets | P | NCAA | 2008-2010 | C | Florida Gulf Coast University | SF | FL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1352 | June-Reg | Kyle Price | Florida Marlins | 2B | NCAA | 2004-2009 | C | Eastern Oklahoma State College | SF | OK | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1353 | June-Reg | Brandon Trodick | Minnesota Twins | P | NCAA | 2006-2008 | C | College of Southern Nevada | SF | NV | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1354 | June-Reg | Pat Murray ** | Philadelphia Phillies | 1B | - | C | Santa Ana College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1355 | June-Reg | Cody Madison | Houston Astros | CF | NCAA | 2009-2010 | H | Vista del Lago (Moreno Valley,CA) | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1356 | June-Reg | Mason Tobin ** | Atlanta Braves | P | MLB | 2006-2013 | C | Western Nevada College | SF | NV | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1357 | June-Reg | Zach Barger ** | Cleveland Indians | RF | NCAA | 2005-2008 | C | Grossmont College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1358 | June-Reg | Matthew McCracken | Los Angeles Angels | P | - | C | Florida College | SF | FL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1359 | June-Reg | Jake McCarter | Boston Red Sox | P | A+ | 2006-2011 | C | University of Alabama | SF | AL | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1360 | June-Reg | Nathan Albert | New York Yankees | P | - | C | Bakersfield College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | |
| 2006 | 45 | 1361 | June-Reg | Raul Duran | Chicago White Sox | OF | NCAA | 2008-2008 | C | Saddleback College | SF | CA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |
| 2006 | 45 | 1362 | June-Reg | John Goodman | St. Louis Cardinals | P | NCAA | 2004-2007 | C | Georgia Tech | SF | GA | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- |