| | | Thursday, December 26th, 2013 | | Signed Zale Kountouroudas to a minor league contract with a signing bonus of $160,000. |
| Tuesday, December 24th, 2013 | | Signed Thomas Blanchard to a minor league contract with a signing bonus of $140,000. | | Signed John Cook to a minor league contract with a signing bonus of $140,000. |
| Saturday, December 21st, 2013 | | Signed Steve Smith to a minor league contract with a signing bonus of $300,000. |
| Tuesday, December 17th, 2013 | | Drafted SS Alvin Baldwin in the 2013 first-year player draft (Round 1, Pick 24, 24th overall pick). | | Drafted RF Masaki Baba in the 2013 first-year player draft (Supplemental Round 1, Pick 1, 25th overall pick). | | Drafted SP Steve Smith in the 2013 first-year player draft (Round 2, Pick 24, 49th overall pick). | | Drafted SS Zale Kountouroudas in the 2013 first-year player draft (Round 3, Pick 24, 73rd overall pick). | | Drafted SS Thomas Blanchard in the 2013 first-year player draft (Round 4, Pick 24, 97th overall pick). | | Drafted 1B John Cook in the 2013 first-year player draft (Round 5, Pick 24, 121st overall pick). | | Drafted CF Bob Scrymgeour in the 2013 first-year player draft (Round 6, Pick 24, 145th overall pick). | | Drafted SP Bailey Harding in the 2013 first-year player draft (Round 7, Pick 24, 169th overall pick). | | Drafted MR Bryant Oglethorpe in the 2013 first-year player draft (Round 8, Pick 24, 193rd overall pick). | | Drafted CF Yoriie Ine in the 2013 first-year player draft (Round 9, Pick 24, 217th overall pick). | | Drafted CL Momoru Sato in the 2013 first-year player draft (Round 10, Pick 24, 241st overall pick). | | Drafted SP Mario Cortés in the 2013 first-year player draft (Round 11, Pick 24, 265th overall pick). | | Drafted 1B Shayne Gaulton in the 2013 first-year player draft (Round 12, Pick 24, 289th overall pick). |
| Wednesday, December 11th, 2013 | | Placed RF Li-chi Au on the Single A 14-day disabled list. |
| Saturday, November 23rd, 2013 | | Placed 2B Juan Martínez on the 40-man roster. |
| Thursday, November 21st, 2013 | | SP Austin Brown received a 1-year contract through automatic renewal worth a total of $510,000. | | MR Martín Torres received a 1-year contract through automatic renewal worth a total of $510,000. | | 3B Emílio Guerrero becomes a free-agent. | | SP Ray Clay received a 1-year contract through automatic renewal worth a total of $500,000. | | MR Danny Burgess becomes a free-agent. | | 2B Jim Stokes becomes a free-agent. |
| Monday, November 18th, 2013 | | C Tim Shields received a 1-year contract through arbitration worth a total of $6,875,000. | | 2B Stanislav Izyurov received a 1-year contract through arbitration worth a total of $5,000,000. | | SS Paco Fernández received a 1-year contract through arbitration worth a total of $800,000. | | SP Lou Smith received a 1-year contract through arbitration worth a total of $2,375,000. | | C Gene O'Reilly received a 1-year contract through arbitration worth a total of $750,000. | | RF Frank Moyer received a 1-year contract through arbitration worth a total of $1,100,000. | | MR Allen Marshall received a 1-year contract through arbitration worth a total of $800,000. | | SP Anthony Peoples becomes a free-agent. |
| Thursday, November 7th, 2013 | | Signed SP Scott McGuicken to a 2-year contract extension worth a total of $16,640,000. |
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