| Last updated: Sun, November 8, 2009, 20:47 EST |
| Date | Player | Pos. | Transaction |
| 11/4 | Kirk Barton | T | practice squad addition |
| 11/3 | Keith Smith | CB | signed |
| 11/3 | Micheal Spurlock | WR | cut |
| 11/3 | Carson Butler | TE | practice squad deletion |
| 10/28 | Chris Patrick | T | signed |
| 10/28 | Carson Butler | TE | practice squad addition |
| 10/28 | Tarell Brown | CB | signed, three-year extension (through 2013) |
| 10/27 | Diyral Briggs | LB | Activated from the Practice Squad |
| 10/27 | Tony Pashos | T | Placed on IR, fractured scapula |
| 10/27 | Marques Harris | LB | cut |
| 10/21 | Keon Lattimore | RB | practice squad addition |
| 10/19 | Matt Wilhelm | LB | signed |
| 10/19 | Jeff Ulbrich | LB | Placed on IR, concussion |
| 10/13 | Khalif Mitchell | DT | practice squad addition |
| 10/12 | Drew Radovich | T | practice squad deletion |
| 10/12 | Allen Rossum | CB | cut |
| 10/7 | Michael Crabtree | WR | signed/draft choice, Six-year contract |
| 10/7 | Martail Burnett | DE | practice squad addition |
| 10/5 | Dobson Collins | WR | practice squad deletion |
| 9/9 | Drew Radovich | T | practice squad addition |
| 9/8 | Diyral Briggs | LB | practice squad addition |
| 9/8 | Khalif Mitchell | DT | practice squad deletion |
| 9/7 | Tony Pashos | T | signed |
| 9/7 | Diyral Briggs | LB | cut |
| 9/6 | Dobson Collins | WR | practice squad addition |
| 9/6 | Joe Jon Finley | TE | practice squad addition |
| 9/6 | Alex Boone | T | practice squad addition |
| 9/6 | Brit Miller | RB | practice squad addition |
| 9/6 | Khalif Mitchell | DT | practice squad addition |
| 9/6 | Kory Sheets | RB | practice squad addition |
| 9/6 | Dominique Zeigler | WR | practice squad addition |
| 9/5 | Joe Toledo | T | cut |
| 9/5 | Mark Washington | LB | cut |
| 9/5 | Dominique Zeigler | WR | cut |
| 9/5 | Justin Roland | LB | cut |
| 9/5 | Eric Green | CB | cut |
| 9/5 | Jacob Bender | T | cut |
| 9/5 | Bear Pascoe | TE | cut |
| 9/5 | Jay Moore | LB | cut |
| 9/5 | Joe Jon Finley | TE | cut |
| 9/5 | Maurice Price | WR | cut |
| 9/1 | Damon Huard | QB | cut |
| 8/30 | Mark Bradford | WR | cut |
| 8/30 | Chris Francies | WR | cut |
| 8/29 | Marvel Smith | T | retired |
| 8/20 | Eric Green | CB | signed, One-year contract |
| 8/20 | Zak Keasey | RB | cut |
| 8/16 | Thomas Clayton | RB | cut |
| 8/7 | Babatunde Oshinowo | DT | cut |
| 8/7 | Chris Francies | WR | signed |
| 7/31 | Ray McDonald | DE | Placed on the physically unable to perform list |
| 7/30 | Babatunde Oshinowo | DT | signed, One-year contract |
| 7/29 | Walt Harris | CB | Placed on IR, Right ACL surgery |
| 7/27 | Glen Coffee | RB | signed/draft choice, Four-year contract |
| 7/24 | Nate Davis | QB | signed/draft choice, Four-year contract |
| 6/6 | Brian Jennings | TE | signed, Five-year extension (through 2014) |
| 6/4 | Joe Staley | T | signed, Six-year extension (through 2017) |
| 5/28 | Bear Pascoe | TE | signed/draft choice, Four-year contract |
| 5/21 | Dre' Bly | CB | signed, One year contract |
| 5/18 | Jimmy Williams | S | cut |
| 5/18 | Curtis Taylor | S | signed/draft choice, Four-year contract |
| 5/14 | Ricky Jean Francois | DT | signed/draft choice, Four-year contract |
| 5/14 | Scott McKillop | LB | signed/draft choice, Four-year contract |
| More Transactions |
