Introduction: Ischemia-reperfusion injury is a significant threat to tissues in various pathological conditions. The intricate interplay between mitochondrial homeostasis and autophagy has emerged as a crucial determinant of cellular fate during ischemia-reperfusion. In recent years, a novel form of autophagy known as mitophagy has garnered attention for its pivotal role in maintaining mitochondrial quality control and preserving cellular integrity. Search Method: Research materials were extracted from 20 articles using the following databases: Science Direct, Google Scholar, and PubMed by using the keywords: mitophagy, ischemia-reperfusion injury, autophagy, mitochondrial quality control, and cellular survival. Results: Mitophagy serves as an essential mechanism for selectively removing damaged or dysfunctional mitochondria, thereby preventing the release of harmful reactive oxygen species and mitigating oxidative stress-induced damage. The process involves a series of intricate molecular events orchestrated by key regulators such as PTEN-induced putative kinase 1 (PINK1) and Parkin, which act in concert to tag impaired mitochondria for degradation. Furthermore, we explore the multifaceted impact of mitophagy on cellular survival following ischemia-reperfusion injury. While excessive mitophagy can lead to excessive removal of functional mitochondria and subsequent energy depletion, inadequate or impaired mitophagy can result in the accumulation of damaged mitochondria and exacerbate oxidative stress. Striking a delicate balance between these extremes is critical for cellular adaptation and recovery. Conclusion: Understanding the complex relationship between mitophagy and ischemia-reperfusion injury holds great promise for developing targeted therapeutic strategies aimed at enhancing tissue resilience. By deciphering the molecular mechanisms underlying this interaction between mitochondrial quality control and autophagic processes, we can pave the way towards novel interventions that promote cellular survival and mitigate the devastating consequences of ischemic insults.