AIMS: Rhabdomyolysis-associated acute kidney injury (AKI) is life-threatening but effective treatments is lacking. Recently, fatty acid-binding protein 4 (FABP4) has been identified as a mediator of ischemic and toxic AKI through regulating endoplasmic reticulum (ER) stress in our previous studies. However, the role of FABP4 in rhabdomyolysis-induced AKI and extended organelle dysfunctions need to be explored and validated. MAIN METHODS: We firstly performed mRNA-seq and bioinformatic analysis to investigate the role of FABP4. The mouse model was established via injecting glycerol to FABP4 wild type (WT) and knockout (KO) mice. Blood biochemical, inflammatory and apoptotic parameters were measured and compared across groups. Representative pathways of ER stress and mitochondrial dysfunction were also detected and quantified. KEY FINDINGS: Comparing FABP4 WT and FABP4 KO model groups, FABP4 deficiency significantly attenuated renal dysfunction, by reducing serum creatinine (165.90 ± 15.61 μmol/L vs 35.5 ± 8.33 μmol/L, p < 0.0001) and blood urea nitrogen (89.78 ± 6.82 mmol/L vs 19.75 ± 5.97 mmol/L, p < 0.0001), and alleviating tubular injury scores. Inflammatory and apoptotic responses were alleviated by FABP4 genetic inhibition. Mechanistically, glycerol injection triggered ER stress characterized by activated IRE1, PERK, and ATF6 signaling pathways, and induced mitochondrial dysfunction supported by ultrastructural damage, energy metabolic derangement, and excessive mitochondrial fission (upregulated DRP1/downregulated OPA1). These two organelle dysfunctions were effectively relieved by FABP4 deficiency. SIGNIFICANCE: Taken together, genetic inhibition of FABP4 protected against rhabdomyolysis-induced AKI via reducing ER stress as well as mitochondrial dysfunction. FABP4 might act as a novel therapeutic target in rhabdomyolysis-induced AKI.