| Res. | Record | Opponent | Method | Event | Date | Round | Time | Location | Notes |
| Loss | 16–6 | Payton Talbott | Decision (unanimous) | UFC 323 | December 6, 2025 | 3 | 5:00 | Las Vegas, Nevada, United States | |
| Loss | 16–5 | Song Yadong | Technical Decision (unanimous) | UFC Fight Night: Cejudo vs. Song | February 22, 2025 | 3 | 5:00 | Seattle, Washington, United States | An eye injury due to an accidental eye poke rendered Cejudo unable to continue. |
| Loss | 16–4 | Merab Dvalishvili | Decision (unanimous) | UFC 298 | February 17, 2024 | 3 | 5:00 | Anaheim, California, United States | |
| Loss | 16–3 | Aljamain Sterling | Decision (split) | UFC 288 | May 6, 2023 | 5 | 5:00 | Newark, New Jersey, United States | For the UFC Bantamweight Championship. |
| Win | 16–2 | Dominick Cruz | TKO (knee and punches) | UFC 249 | May 9, 2020 | 2 | 4:58 | Jacksonville, Florida, United States | Defended the UFC Bantamweight Championship. Cejudo vacated the title on May 24, 2020 after his retirement. |
| Win | 15–2 | Marlon Moraes | TKO (punches) | UFC 238 | June 8, 2019 | 3 | 4:51 | Chicago, Illinois, United States | Won the vacant UFC Bantamweight Championship. Performance of the Night. |
| Win | 14–2 | Dillashaw | TKO (punches) | UFC Fight Night: Cejudo vs. Dillashaw | January 19, 2019 | 1 | 0:32 | Brooklyn, New York, United States | Defended the UFC Flyweight Championship. Performance of the Night. Dillashaw tested positive in pre and post-fight drug tests for erythropoietin (EPO). Cejudo vacated the title on February 29, 2020. |
| Win | 13–2 | Demetrious Johnson | Decision (split) | UFC 227 | August 4, 2018 | 5 | 5:00 | Los Angeles, California, United States | Won the UFC Flyweight Championship. Fight of the Night. |
| Win | 12–2 | Sergio Pettis | Decision (unanimous) | UFC 218 | December 2, 2017 | 3 | 5:00 | Detroit, Michigan, United States | |
| Win | 11–2 | Wilson Reis | TKO (punches) | UFC 215 | September 9, 2017 | 2 | 0:25 | Edmonton, Alberta, Canada | Performance of the Night. |
| Loss | 10–2 | Joseph Benavidez | Decision (split) | The Ultimate Fighter: Tournament of Champions Finale | December 3, 2016 | 3 | 5:00 | Las Vegas, Nevada, United States | Cejudo was deducted one point in round 1 due to repeated low blows. |
| Loss | 10–1 | Demetrious Johnson | TKO (knees to the body) | UFC 197 | April 23, 2016 | 1 | 2:49 | Las Vegas, Nevada, United States | For the UFC Flyweight Championship. |
| Win | 10–0 | Jussier Formiga | Decision (split) | The Ultimate Fighter Latin America 2 Finale: Magny vs. Gastelum | November 21, 2015 | 3 | 5:00 | Monterrey, Mexico | |
| Win | 9–0 | Chico Camus | Decision (unanimous) | UFC 188 | June 13, 2015 | 3 | 5:00 | Mexico City, Mexico | |
| Win | 8–0 | Chris Cariaso | Decision (unanimous) | UFC 185 | March 14, 2015 | 3 | 5:00 | Dallas, Texas, United States | |
| Win | 7–0 | Dustin Kimura | Decision (unanimous) | UFC on Fox: dos Santos vs. Miocic | December 13, 2014 | 3 | 5:00 | Phoenix, Arizona, United States | Bantamweight bout. |
| Win | 6–0 | Elias Garcia | Decision (unanimous) | Legacy FC 27 | January 31, 2014 | 3 | 5:00 | Houston, Texas, United States | Flyweight debut; Cejudo missed weight (128.5 lb). |
| Win | 5–0 | Ryan Hollis | Decision (unanimous) | Legacy FC 24 | October 11, 2013 | 3 | 5:00 | Dallas, Texas, United States | Catchweight (128 lb) bout. |
| Win | 4–0 | Miguelito Marti | TKO (punches) | Gladiator Challenge: American Dream | May 18, 2013 | 1 | 1:43 | Lincoln, California, United States | |
| Win | 3–0 | Anthony Sessions | TKO (punches) | World Fighting Federation 10 | April 19, 2013 | 1 | 4:23 | Chandler, Arizona, United States | Won the vacant WFF Bantamweight Championship. |
| Win | 2–0 | Sean Henry Barnett | TKO (punches) | Gladiator Challenge: Battleground | March 24, 2013 | 1 | 4:55 | San Jacinto, California, United States | |
| Win | 1–0 | Michael Poe | TKO (submission to punches) | World Fighting Federation: Pascua Yaqui Fights 4 | March 2, 2013 | 1 | 1:25 | Tucson, Arizona, United States | Bantamweight debut. |
