We conducted a phase I trial to determine the maximum tolerated dose (MTD) of clofarabine with high-dose busulfan followed by allogeneic stem cell transplantation (SCT) in patients with high-risk and refractory acute leukemia. Patients received intravenous busulfan 0.8 mg/kg every 6 h on days À6 to À3 and clofarabine 30-60 mg/m 2 per day on days À6 to À2. Graft-versus-host disease prophylaxis included sirolimus plus tacrolimus (days À2 to þ 180). A total of 15 patients, median age 48 (30-58) years, with acute leukemia that was relapsed and refractory (n ¼ 8), primary refractory (n ¼ 6), or in CR2 (n ¼ 1), were treated at four clofarabine dose levels: 30 (n ¼ 3), 40 (n ¼ 3), 50 (n ¼ 3) and 60 mg/m 2 per day (n ¼ 6) with busulfan. All engrafted, and the MTD was not reached. Grades 3-4 nonhematological toxicities included vomiting (n ¼ 3), mucositis (n ¼ 9), hand-foot syndrome (n ¼ 1), acute renal failure (n ¼ 1) and reversible elevation of aspartate aminotransferase/alanine aminotransferase (n ¼ 10). The 1-year event-free survival was 53% (95% confidence interval: 33-86%), and the 1-year overall survival was 60% (95% confidence interval: 40-91%). Given the good tolerability and promising results, we recommend clofarabine 60 mg/m 2 per day  5 days as a phase II dose in combination with busulfan (12.8 mg per kg total dose) for further study as a myeloablative regimen for allogeneic SCT for high-risk acute leukemia.