| Pos - Team - Date | Player Obtained | Player(s) Lost |
| RP - Oakland - 7/30/03 | |
| SP - Boston - 7/30/03 | |
| SP - New York Yankees - 7/31/03 | |
| SP - Atlanta - 8/14/03 | |
| RP - Chicago Cubs - 8/25/03 | |
| 3B - Chicago White Sox - 8/26/03 | |
| OF - Philadelphia - 8/31/03 | |
| RP - Atlanta - 3/26/04 | |
| RP - New York Yankees - 6/18/04 | |
| SP - Philadelphia - 7/30/04 | |
| INF - Philadelphia - 7/30/04 | |
| SP - Philadelphia - 8/11/04 | |
| RP - Anaheim - 12/14/04 | |
| RP - Colorado - 4/9/05 | |
| RP - San Diego - 7/23/05 | |
| SP - Pittsburgh - 12/8/05 | |
| 2B - New York Yankees - 12/8/05 | |
| SP - Boston - 3/20/06 | |
| C - San Diego - 3/21/06 | |
| 2B - Cleveland - 4/7/06 | |
| UT - Los Angeles Dodgers - 4/24/06 | |
| SP - New York Mets - 5/25/06 | |
| RP - Los Angeles Angels - 5/30/06 | |
| INF - Minnesota - 6/15/06 | |
| RP - Seattle - 7/6/06 | |
| RP - Washington - 7/13/06 | |
| SS - Washington - 7/13/06 | |
| INF - Washington - 7/13/06 | |
| RP - Washington - 7/13/06 | |
| SP - Washington - 7/13/06 | |