| ROUND | PICK | OVERALL | CURRENT | ALASKA PIPELINERS | TEAM | POS | ORIGINAL |
| 1 | 11 | 11 | AP | ROMERO, JUAN CARLOS "J.C." | MINA | RE | AP |
| 2 | 11 | 29 | AP | ELLIS, MARK WILLIAM | OAKA | 2B | AP |
| 3 | 11 | 47 | AP | DONNELLY, BRENDAN KEVIN | ANAA | RE | AP |
| 5 | 11 | 83 | AP | PRATT, TODD ALAN | PHIN | C | AP |
| 7 | 11 | 119 | AP | TUCKER, THOMAS JOHN "T.J." | MONN | RE | AP |
| 8 | 11 | 137 | AP | MINOR, DAMON REED | SF N | 1B | AP |
| ROUND | PICK | OVERALL | CURRENT | ALBUQUERQUE THUNDER | TEAM | POS | ORIGINAL |
| 1 | 10 | 10 | AT | LOPEZ, RODRIGO MUNOZ | BALA | ST | AT |
| 2 | 10 | 28 | AT | PERRY, HERBERT EDWARD | TEXA | 3B | AT |
| 3 | 10 | 46 | AT | BOROWSKI, JOSEPH THOMAS "JOE" | CHIN | RE | AT |
| 4 | 10 | 64 | AT | MC CRACKEN, QUINTON ANTOINE | ARIN | OF | AT |
| 6 | 10 | 100 | AT | PEREZ, TIMONIEL M "TIMO" | NY N | OF | AT |
| 7 | 10 | 118 | AT | HARRIS, LEONARD ANTHONY "LENNY | MILN | OF | AT |
| 8 | 2 | 128 | AT | FRANCO, JULIO CESAR | ATLN | 1B | SPH |
| 8 | 10 | 136 | AT | MERCED, ORLANDO LUIS | HOUN | OF | AT |
| 9 | 10 | 154 | AT | PALMEIRO, ORLANDO | ANAA | OF | AT |
| 10 | 3 | 165 | AT | BAERGA, CARLOS OBED | BOSA | 2B | MIB |
| 10 | 10 | 172 | AT | LOMBARD, GEORGE PAUL | DETA | OF | AT |
| ROUND | PICK | OVERALL | CURRENT | BRANDYWINE BOMBERS | TEAM | POS | ORIGINAL |
| 4 | 5 | 59 | BB | FIORE, ANTHONY JAMES "TONY" | MINA | RE | BB |
| 5 | 15 | 87 | BB | SANCHEZ, ALEXIS "ALEX" | MILN | OF | GIT |
| 6 | 5 | 95 | BB | ENSBERG, MORGAN P | HOUN | 3B | BB |
| 9 | 11 | 155 | BB | RINCON, JUAN MANUEL | MINA | RE | AP |
| 10 | 5 | 167 | BB | YOSHII, MASATO | MONN | RE | BB |
| ROUND | PICK | OVERALL | CURRENT | BAY COUNTY PIRATES | TEAM | POS | ORIGINAL |
| 1 | 6 | 6 | BCP | BELLHORN, MARK CHRISTIAN | CHIN | 2B | LVP |
| 2 | 13 | 31 | BCP | LARSON, BRANDON JOHN | CINN | OF | BCP |
| 5 | 13 | 85 | BCP | SANTIAGO, RAMON D | DETA | SS | BCP |
| 6 | 12 | 102 | BCP | SHIELDS, ROBERT SCOT "SCOT" | ANAA | RE | LA |
| 6 | 13 | 103 | BCP | BYRNES, ERIC JAMES | OAKA | OF | BCP |
| 7 | 18 | 126 | BCP | BUCHANAN, BRIAN JAMES | SD N | OF | MM |
| 8 | 5 | 131 | BCP | EYRE, SCOTT ALAN | SF N | RE | BB |
| 8 | 13 | 139 | BCP | SMITH, DANIEL CHARLES "DAN" | MONN | RE | BCP |
| 9 | 13 | 157 | BCP | HYZDU, ADAM DAVIS | PITN | OF | BCP |
| 10 | 13 | 175 | BCP | HUCKABY, KENNETH PAUL "KEN" | TORA | C | BCP |
| ROUND | PICK | OVERALL | CURRENT | BUFFALO GRIZZLIES | TEAM | POS | ORIGINAL |
| 1 | 1 | 1 | BG | PRIOR, MARK WILLIAM | CHIN | ST | BG |
| 2 | 1 | 19 | BG | BYRD, MARLON JERRARD | PHIN | OF | BG |
| 3 | 1 | 37 | BG | FOGG, JOSHUA SMITH "JOSH" | PITN | ST | BG |
| 5 | 1 | 73 | BG | GIL, GERONIMO | BALA | C | BG |
| 5 | 8 | 80 | BG | ROA, JOSEPH RODGER "JOE" | PHIN | RE | CK |
| 6 | 1 | 91 | BG | VILLAFUERTE, BRANDON PAUL | SD N | RE | BG |
| 7 | 1 | 109 | BG | MAROTH, MICHAEL WARREN "MIKE" | DETA | ST | BG |
| 8 | 1 | 127 | BG | THURMAN, COREY LAMAR | TORA | RE | BG |
| 9 | 1 | 145 | BG | GINTER, KEITH MICHAEL | MILN | 3B | BG |
| 10 | 1 | 163 | BG | SADLER, WILLIAM CARL "CARL" | CLEA | RE | BG |
| ROUND | PICK | OVERALL | CURRENT | BAR HARBOR LOBSTERS | TEAM | POS | ORIGINAL |
| 3 | 12 | 48 | BHL | RODRIGUEZ, FRANCISCO JOSE | ANAA | RE | LA |
| 4 | 6 | 60 | BHL | HARRIS, WILLIAM CHARLES "WILLI | CHIA | 2B | LVP |
| 6 | 6 | 96 | BHL | CRISP, COVELLI LOYCE "COCO" | CLEA | OF | LVP |
| 9 | 6 | 150 | BHL | HINCH, ANDREW JAY "A.J." | KC A | C | LVP |
| 9 | 14 | 158 | BHL | CINTRON, ALEXANDER "ALEX" | ARIN | 2B | BHL |
| 10 | 6 | 168 | BHL | WOHLERS, MARK EDWARD | CLEA | RE | LVP |
| 10 | 11 | 173 | BHL | BENES, ALAN PAUL | CHIN | ST | AP |
| ROUND | PICK | OVERALL | CURRENT | CARIBBEAN KINGS | TEAM | POS | ORIGINAL |
| 3 | 8 | 44 | CK | MENCH, KEVIN F | TEXA | OF | CK |
| 3 | 13 | 49 | CK | HOLMES, DARREN LEE | ATLN | RE | BCP |
| 4 | 11 | 65 | CK | MOHR, DUSTAN KYLE | MINA | OF | AP |
| 4 | 16 | 70 | CK | STARK, DENNIS | COLN | RE | IFD |
| 6 | 8 | 98 | CK | CHAVEZ, ENDY DE JESUS (MEZA) | MONN | OF | CK |
| 7 | 8 | 116 | CK | TORREALBA, YORVIT ADOLFO | SF N | C | CK |
| 9 | 8 | 152 | CK | OROSCO, JESSE | LA N | RE | CK |
| 10 | 8 | 170 | CK | KINGSALE, EUGENE HUMPHREY "GEN | SD N | OF | CK |
| ROUND | PICK | OVERALL | CURRENT | DURHAM BULLS | TEAM | POS | ORIGINAL |
| 1 | 7 | 7 | DB | LACKEY, JOHN DERRAN | ANAA | ST | DB |
| 1 | 12 | 12 | DB | MOSS, DAMIAN JOSEPH | ATLN | ST | LA |
| 2 | 7 | 25 | DB | EISCHEN, JOSEPH RAYMOND "JOEY" | MONN | RE | DB |
| 3 | 7 | 43 | DB | SCHNEIDER, BRIAN DUNCAN | MONN | C | DB |
| 4 | 7 | 61 | DB | ROBERTS, GRANT WILLIAM | NY N | RE | DB |
| 4 | 12 | 66 | DB | DUROCHER, JAYSON PAUL | MILN | RE | LA |
| 5 | 7 | 79 | DB | FRANCO, MATTHEW NEIL "MATT" | ATLN | 1B | DB |
| 5 | 14 | 86 | DB | CEPICKY, MATTHEW WILLIAM "MATT | MONN | OF | BHL |
| 6 | 7 | 97 | DB | KINKADE, MICHAEL A "MIKE" | LA N | 1B | DB |
| 6 | 14 | 104 | DB | DE LOS SANTOS, VALERIO LORENZO | MILN | RE | BHL |
| 6 | 16 | 106 | DB | TAYLOR, REGINALD TREMAIN "REGG | CINN | OF | IFD |
| 7 | 7 | 115 | DB | MACKOWIAK, ROBERT WILLIAM "ROB | PITN | OF | DB |
| 7 | 15 | 123 | DB | BLOOMQUIST, WILLIAM PAUL "WILL | SEAA | OF | GIT |
| 8 | 7 | 133 | DB | TEJERA, MICHAEL | FLAN | RE | DB |
| 8 | 8 | 134 | DB | PARONTO, CHAD MICHAEL | CLEA | RE | CK |
| 9 | 7 | 151 | DB | BARAJAS, RODRIGO RICHARD "ROD" | ARIN | C | DB |
| 10 | 2 | 164 | DB | CONTI, STANLEY JASON "JASON" | TB A | OF | SPH |
| ROUND | PICK | OVERALL | CURRENT | GRAND ISLAND TORNADOS | TEAM | POS | ORIGINAL |
| 2 | 15 | 33 | GIT | CRUDALE, MICHAEL C "MIKE" | STLN | RE | GIT |
| 3 | 15 | 51 | GIT | MUNRO, PETER DANIEL "PETE" | HOUN | RE | GIT |
| 6 | 15 | 105 | GIT | BACSIK, MICHAEL JOSEPH "MIKE" | NY N | ST | GIT |
| 6 | 17 | 107 | GIT | GRISSOM, MARQUIS DEAN | LA N | OF | KF |
| 8 | 15 | 141 | GIT | CARROLL, JAMEY BLAKE | MONN | 3B | GIT |
| 9 | 15 | 159 | GIT | MACHADO, ROBERT ALEXIS | MILN | C | GIT |
| ROUND | PICK | OVERALL | CURRENT | IOWA FIELD OF DREAMS | TEAM | POS | ORIGINAL |
| 1 | 5 | 5 | IFD | CREDE, JOSEPH "JOE" | CHIA | 3B | BB |
| 1 | 8 | 8 | IFD | LANE, JASON DEAN | HOUN | OF | CK |
| 1 | 16 | 16 | IFD | PHELPS, JOSHUA LEE "JOSH" | TORA | 1B | IFD |
| 2 | 5 | 23 | IFD | SPOONEYBARGER, TIMOTHY F "TIM" | ATLN | RE | BB |
| 2 | 8 | 26 | IFD | WOODWARD, CHRISTOPHER MICHAEL | TORA | SS | CK |
| 3 | 16 | 52 | IFD | GREENE, TODD ANTHONY | TEXA | 1B | IFD |
| 8 | 16 | 142 | IFD | HACKMAN, LUTHER GEAN | STLN | RE | IFD |
| 9 | 9 | 153 | IFD | WILSON, VANCE ALLEN | NY N | C | OW |
| 9 | 16 | 160 | IFD | BAUER, RICHARD EDWARD "RICK" | BALA | RE | IFD |
| 10 | 16 | 178 | IFD | ARROYO, BRONSON ANTHONY | PITN | RE | IFD |
| 10 | 18 | 180 | IFD | SEDLACEK, SHAWN PATRICK | KC A | ST | MM |
| ROUND | PICK | OVERALL | CURRENT | KENTUCKY FLOODS | TEAM | POS | ORIGINAL |
| 1 | 14 | 14 | KF | CHOI, HEE-SEOP | CHIN | 1B | BHL |
| 3 | 17 | 53 | KF | HUDSON, ORLANDO THILL | TORA | 2B | KF |
| 4 | 8 | 62 | KF | BARD, JOSHUA DAVID "JOSH" | CLEA | C | CK |
| 4 | 13 | 67 | KF | OZUNA, PABLO JOSE | FLAN | 2B | BCP |
| 4 | 18 | 72 | KF | NEAL, BLAINE | FLAN | RE | MM |
| 5 | 6 | 78 | KF | SNELLING, CHRISTOPHER DOYLE "C | SEAA | OF | LVP |
| 5 | 16 | 88 | KF | DRESE, RYAN THOMAS | CLEA | ST | IFD |
| 7 | 17 | 125 | KF | DAY, STEPHEN ZACHARY "ZACH" | MONN | RE | KF |
| 8 | 6 | 132 | KF | WERTH, JAYSON RICHARD | TORA | OF | LVP |
| 8 | 17 | 143 | KF | GINTER, MATTHEW SHANE "MATT" | CHIA | RE | KF |
| 9 | 2 | 146 | KF | MERCADO, HECTOR LUIS | PHIN | RE | SPH |
| 9 | 17 | 161 | KF | ALMANZA, ARMANDO N | FLAN | RE | KF |
| 10 | 15 | 177 | KF | KNOTTS, GARY EVERETT | FLAN | RE | GIT |
| ROUND | PICK | OVERALL | CURRENT | LaGRANGE APPLEKNOCKERS | TEAM | POS | ORIGINAL |
| 2 | 18 | 36 | LA | HAMMOND, CHRISTOPHER ANDREW "C | ATLN | RE | MM |
| 5 | 12 | 84 | LA | GUTHRIE, MARK ANDREW | NY N | RE | LA |
| 5 | 18 | 90 | LA | MULLEN, KENNETH SCOTT "SCOTT" | KC A | RE | MM |
| 7 | 12 | 120 | LA | MILLER, ABRAHAM PHILIP "CORKY" | CINN | C | LA |
| 8 | 12 | 138 | LA | ECHEVARRIA, ANGEL SANTOS | CHIN | OF | LA |
| 9 | 12 | 156 | LA | O'LEARY, TROY FRANKLIN | MONN | OF | LA |
| 9 | 18 | 162 | LA | BANKS, WILLIE ANTHONY | BOSA | RE | MM |
| 10 | 7 | 169 | LA | COOK, DENNIS BRYAN | ANAA | RE | DB |
| 10 | 12 | 174 | LA | GOODWIN, THOMAS JONES "TOM" | SF N | OF | LA |
| 10 | 17 | 179 | LA | REYES, RAFAEL ALBERTO "ALBERTO | PITN | RE | KF |
| ROUND | PICK | OVERALL | CURRENT | LAS VEGAS PLAYBOYS | TEAM | POS | ORIGINAL |
| 2 | 6 | 24 | LVP | LILLY, THEODORE ROOSEVELT "TED | OAKA | RE | LVP |
| 2 | 17 | 35 | LVP | SILVA, CARLOS | PHIN | RE | KF |
| 3 | 6 | 42 | LVP | JENNINGS, JASON RYAN | COLN | ST | LVP |
| 4 | 14 | 68 | LVP | WIGGINTON, TY ALLEN | NY N | 3B | BHL |
| 4 | 15 | 69 | LVP | TANKERSLEY, DENNIS LEE | SD N | RE | GIT |
| 5 | 5 | 77 | LVP | BENNETT, GARY DAVID | COLN | C | BB |
| 7 | 6 | 114 | LVP | BERROA, ANGEL MARIA (SELMO) | KC A | SS | LVP |
| 10 | 14 | 176 | LVP | PEREZ, EDUARDO ANTANCIO "EDDIE | STLN | OF | BHL |
| ROUND | PICK | OVERALL | CURRENT | MEN IN BLUE | TEAM | POS | ORIGINAL |
| 1 | 3 | 3 | MIB | HINSKE, ERIC SCOTT | TORA | 3B | MIB |
| 2 | 3 | 21 | MIB | CUDDYER, MICHAEL BRENT "MIKE" | MINA | OF | MIB |
| 2 | 14 | 32 | MIB | SORIANO, RAFAEL | SEAA | ST | BHL |
| 3 | 3 | 39 | MIB | RAUCH, JON ERICH | CHIA | RE | MIB |
| 3 | 14 | 50 | MIB | RIVERA, JUAN LUIS | NY A | OF | BHL |
| 4 | 1 | 55 | MIB | ASENCIO, MIGUEL (DE PAULA) | KC A | RE | BG |
| 4 | 3 | 57 | MIB | SAARLOOS, KIRK CRAIG | HOUN | ST | MIB |
| 5 | 3 | 75 | MIB | MILLER, JUSTIN M | TORA | RE | MIB |
| 6 | 3 | 93 | MIB | MOELLER, CHAD EDWARD | ARIN | C | MIB |
| 7 | 3 | 111 | MIB | STEPHENS, JOHN M | BALA | ST | MIB |
| 7 | 5 | 113 | MIB | BROUSSARD, BENJAMIN ISAAC "BEN | CLEA | OF | BB |
| 8 | 3 | 129 | MIB | HERNANDEZ, CARLOS ENRIQUE | HOUN | ST | MIB |
| 9 | 3 | 147 | MIB | BERGER, BRANDON CHARLES | KC A | OF | MIB |
| ROUND | PICK | OVERALL | CURRENT | MILFORD MUDLARKS | TEAM | POS | ORIGINAL |
| 2 | 12 | 30 | MM | CRAWFORD, CARL DEMONTE | TB A | OF | LA |
| 2 | 16 | 34 | MM | OLIVO, MIGUEL EDUARDO (PENA) | CHIA | C | IFD |
| 3 | 5 | 41 | MM | ZAMBRANO, CARLOS ALBERTO | CHIN | RE | BB |
| 3 | 18 | 54 | MM | RODRIGUEZ, RICARDO ANTONIO | CLEA | ST | MM |
| 5 | 10 | 82 | MM | BENOIT, JOAQUIN ANTONIO (PENA) | TEXA | RE | AT |
| 6 | 18 | 108 | MM | AFFELDT, JEREMY DAVID | KC A | RE | MM |
| 8 | 18 | 144 | MM | MAY, DARRELL KEVIN | KC A | RE | MM |
| ROUND | PICK | OVERALL | CURRENT | ORLANDO WIZARDS | TEAM | POS | ORIGINAL |
| 1 | 9 | 9 | OW | BLALOCK, HANK JOE | TEXA | 3B | OW |
| 1 | 13 | 13 | OW | BURROUGHS, SEAN PATRICK | SD N | 3B | BCP |
| 1 | 18 | 18 | OW | HILL, WILLIAM ROBERT "BOBBY" | CHIN | 2B | MM |
| 2 | 9 | 27 | OW | AINSWORTH, KURT HAROLD | SF N | RE | OW |
| 3 | 9 | 45 | OW | MARTE, DAMASO (SABINON) | CHIA | RE | OW |
| 4 | 9 | 63 | OW | KOPLOVE, MICHAEL PAUL "MIKE" | ARIN | RE | OW |
| 5 | 9 | 81 | OW | CERDA, JAIME M | NY N | RE | OW |
| 6 | 9 | 99 | OW | CORA, JOSE ALEX "ALEX" | LA N | SS | OW |
| 7 | 9 | 117 | OW | ESTALELLA, ROBERT M "BOBBY" | COLN | C | OW |
| 7 | 13 | 121 | OW | PUFFER, BRANDON DUANE | HOUN | RE | BCP |
| 7 | 16 | 124 | OW | BEIMEL, JOSEPH RONALD "JOE" | PITN | RE | IFD |
| 8 | 9 | 135 | OW | ROMANO, JASON ANTHONY | COLN | OF | OW |
| 10 | 9 | 171 | OW | MICHAELS, JASON DREW | PHIN | OF | OW |
| ROUND | PICK | OVERALL | CURRENT | SPRINGFIELD OWLS | TEAM | POS | ORIGINAL |
| 1 | 4 | 4 | SO | BECKETT, JOSHUA PATRICK "JOSH" | FLAN | ST | SO |
| 2 | 4 | 22 | SO | BORCHARD, JOSEPH EDWARD "JOE" | CHIA | OF | SO |
| 3 | 4 | 40 | SO | HERNANDEZ, RUNELVYS ANTONIO | KC A | ST | SO |
| 4 | 4 | 58 | SO | ROBERTS, DAVID RAY "DAVE" | LA N | OF | SO |
| 5 | 4 | 76 | SO | WALKER, PETER BRIAN "PETE" | TORA | RE | SO |
| 6 | 4 | 94 | SO | STONE, RICKY L | HOUN | RE | SO |
| 6 | 11 | 101 | SO | MABRY, JOHN STEVEN | OAKA | OF | AP |
| 7 | 4 | 112 | SO | WALKER, JAMES ROSS "JAMIE" | DETA | RE | SO |
| 8 | 4 | 130 | SO | RIVERA, MICHAEL R "MIKE" | DETA | C | SO |
| 9 | 4 | 148 | SO | WIDGER, CHRISTOPHER JON "CHRIS | NY A | C | SO |
| 9 | 5 | 149 | SO | HALL, WILLIAM "BILL" | MILN | SS | BB |
| ROUND | PICK | OVERALL | CURRENT | SOUTH PHILLY HITMEN | TEAM | POS | ORIGINAL |
| 1 | 2 | 2 | SPH | KEARNS, AUSTIN RYAN | CINN | OF | SPH |
| 1 | 15 | 15 | SPH | MYERS, BRETT ALLEN | PHIN | ST | GIT |
| 1 | 17 | 17 | SPH | PEREZ, OLIVER | SD N | ST | KF |
| 2 | 2 | 20 | SPH | PEAVY, JACOB EDWARD "JAKE" | SD N | ST | SPH |
| 3 | 2 | 38 | SPH | NEUGEBAUER, NICKOLAS D "NICK" | MILN | ST | SPH |
| 4 | 2 | 56 | SPH | SIMONTACCHI, JASON WILLIAM | STLN | ST | SPH |
| 4 | 17 | 71 | SPH | ISHII, KAZUHISA | LA N | ST | KF |
| 5 | 2 | 74 | SPH | SANTANA, JULIO FRANKLIN | DETA | RE | SPH |
| 5 | 17 | 89 | SPH | HARANG, AARON M | OAKA | ST | KF |
| 6 | 2 | 92 | SPH | TORRES, SALOMON RAMIREZ | PITN | ST | SPH |
| 7 | 2 | 110 | SPH | KINNEY, MATTHEW JOHN "MATT" | MINA | ST | SPH |
| 7 | 14 | 122 | SPH | FOX, ANDREW JUNIPERO "ANDY" | FLAN | SS | BHL |
| 8 | 14 | 140 | SPH | GRYBOSKI, KEVIN JOHN | ATLN | RE | BHL |
| 10 | 4 | 166 | SPH | PEREZ, YORKIS MIGUEL | BALA | RE | SO |