Acute kidney injury (AKI) occurs in 21–84% of children after hematopoietic stem cell transplant (HCT) and significantly increases morbidity and mortality. The etiology is multifactorial, including nephrotoxic medications, hypoperfusion, transplant-associated thrombotic microangiopathy (TA-TMA), and sinusoidal obstruction syndrome (SOS). Early recognition using biomarkers like NGAL and cystatin C, along with careful fluid management and timely kidney replacement therapy, is critical to improve outcomes and reduce the risk of chronic kidney disease (CKD), which develops in up to 48% of pediatric HCT survivors.