FLVCR1-related diseases encompass a group of rare genetic disorders characterized by sensory neuropathy, sensory ataxia and retinitis pigmentosa, that are caused by mutations in the Feline Leukemia Virus Subgroup C Receptor 1 (FLVCR1) gene. Evidence suggest that mitochondrial failure represents a key pathogenetic mechanism underlying FLVCR1-related diseases and that patients may benefit from therapeutic strategies boosting mitochondrial energy metabolism. However, a comprehensive understanding of the cause responsible for mitochondrial dysfunction is mandatory to choose the best therapeutic approach in future. Considering that FLVCR1 mutations impact on both heme and choline metabolism, we sought to understand whether the mitochondrial failure in patients’ cells can be attributed to the alteration of one of these two processes and whether pharmacological treatments are effective in restoring mitochondrial function. Our findings reveal mitochondrial dysfunction and heightened lipid peroxidation in patient-derived fibroblasts and zebrafish morphants. Rescue experiments demonstrate that targeting heme metabolism fully reinstates TCA cycle flux, oxidative phosphorylation, and mitochondrial ATP content in patient fibroblasts, while choline supplementation only partially restores mitochondrial ATP content. Intriguingly, both interventions significantly mitigate lipid peroxidation in patient fibroblasts. Although the potential role of choline cannot be discounted, our results strongly suggest that a heme-dependent mitochondrial failure is a pivotal factor in the disease pathogenesis. This study defines FLVCR1-associated sensory neuropathy as a mitochondrial disorder specific to certain tissues, representing a significant stride towards identifying therapeutic approaches for this rare disease.