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| Friday, December 29th, 2028 |
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| Lost 2B Santo Cruz in the Rule 5 Draft to the New Orleans Looters. |
| Lost RF Rafael Acosta in the Rule 5 Draft to the Vista Panthers. |
| Drafted C Dave Gordon in the 2028 Rule 5 Draft (Round 1, Pick 29, 29th overall Pick), from the Nevada Noise. |
| Lost SP Máximo Marín in the Rule 5 Draft to the St. Louis Browns. |
| Drafted C Bonifacio Torres in the 2028 Rule 5 Draft (Round 2, Pick 29, 59th overall Pick), from the Vista Panthers. |
| Thursday, December 21st, 2028 |
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| Signed international amateur SP Alfredo Rodríguez out of Dominican Republic to a minor league contract. |
| Sunday, December 17th, 2028 |
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| Placed SP Carl Willis on the 40-man roster. |
| DH Leonardo Medina was designated for assignment and placed on waivers. |
| Sunday, December 10th, 2028 |
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| Traded 30-year-old shortstop Aaron Wilson to the Boston Rebels, getting $1,000,000 in cash in return. |
| Traded 29-year-old reliever Germán Pérez to the Nashville G-Strings, getting 24-year-old minor league starting pitcher Carl Willis in return. |
| Traded 34-year-old starting pitcher Jung Chwa to the Vista Panthers, getting 17-year-old minor league starting pitcher Javier Zampieri and 17-year-old minor league second baseman Andrés Pérez in return. |
| Purchased the contract of RP Jun Kawashima from Triple A Houston. |
| Sunday, December 3rd, 2028 |
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| RP Millard Curtis received a 1-year contract through automatic renewal worth a total of $400,000. |
| SP Alfredo Montalvo received a 1-year contract through automatic renewal worth a total of $400,000. |
| 2B Jorge Martínez becomes a free-agent. |
| RP Mike Fisher becomes a free-agent. |
| C Raúl Salas becomes a free-agent. |
| RP Santiago González becomes a free-agent. |
| LF Eichiro Yamamoto becomes a free-agent. |
| 3B Don Hooper received a 1-year contract through automatic renewal worth a total of $400,000. |
| SS Carlos Córdova received a 1-year contract through automatic renewal worth a total of $400,000. |
| RP Jun Kawashima received a 1-year contract through automatic renewal worth a total of $400,000. |
| Placed DH Leonardo Medina on the 40-man roster. |
| Placed DH Leonardo Medina on the active roster. |
| Demoted LF Dan Mason to Triple A Houston. |
| Released CF Chris Waggoner. |
| Released CF Dave Stewart. |
| Released RP Fred Martin. |
| Released C Ánibal Pérez. |
| Released C Shawn Bane. |
| Released RF Pat Jones. |
| Released SS Jorge Romero. |
| Thursday, November 30th, 2028 |
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| Signed international amateur SS Diego Santos out of Puerto Rico to a minor league contract. |
| 1B Frank Geddes received a 1-year contract through arbitration worth a total of $600,000. |
| SS Aaron Wilson received a 1-year contract through arbitration worth a total of $2,200,000. |
| SP Mike Marrero received a 1-year contract through arbitration worth a total of $4,000,000. |
| RP Germán Pérez received a 1-year contract through arbitration worth a total of $2,750,000. |
| RF Pablo Rivas was not offered arbitration, becomes a free agent. |
| SP William Watson becomes a free-agent. |
| RP Joe Wilson received a 1-year contract through arbitration worth a total of $700,000. |
| Thursday, November 23rd, 2028 |
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| SP Júlio Aguilar was claimed off waivers by So Cal. |
| Wednesday, November 22nd, 2028 |
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| Signed international amateur SP Luis Costa out of Colombia to a minor league contract. |
| Thursday, November 16th, 2028 |
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| Signed manager Willie Lara to a 1-year, $314,000 per year contract. |
| Wednesday, November 15th, 2028 |
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| Purchased the contract of SS Carlos Córdova from Triple A Houston. |
| Sunday, November 12th, 2028 |
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| Signed international amateur 2B Francisco Hernández out of El Salvador to a minor league contract. |
| Thursday, November 9th, 2028 |
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| Voided the team option year(s) of 2B Jorge Martínez for a buyout of $2,000,000. |
| LF Dan Mason was designated for assignment and placed on waivers. |
| Released LF Eichiro Yamamoto. |
| DH Leonardo Medina was designated for assignment and placed on waivers. |
| Released RF Pablo Rivas. |
| Released C Raúl Salas. |
| CL Júlio Aguilar was designated for assignment and placed on waivers. |
| Released SP William Watson. |
| Released RF José Esparza. |
