Ex vivo CD34+ selected T-cell depletion (TCD) has been developed as a strategy to reduce the incidence of graft-versus-host disease (GVHD) after allogeneic hematopoietic stem cell transplantation (allo-HSCT). Clinical characteristics, treatment responses, and outcomes of patients developing acute (a-) and chronic (c-) GVHD after TCD allo-HSCT have not been well established. We evaluated 241 consecutive patients (median age 57 years) with acute leukemia (n = 191, 79%) or myelodysplastic syndrome (MDS) (n = 50, 21%) undergoing CD34+ selected TCD allo-HSCT without post-HCST immunosuppression in a single institution. Cumulative incidences of grade II–IV and III–IV aGVHD at 180 days were 16% (95% CI:12–21) and 5% (95% CI:3–9), respectively. The skin was the most frequent organ involved, followed by the GI tract. Patients were treated with topical corticosteroids, poorly absorbed corticosteroids (Budesonide), and/or systemic corticosteroids. The overall day 28 treatment response was high at 82%. Cumulative incidence of any cGVHD at 3 years was 5% (95% CI:3–9), with a median time of onset of 256 days (range 95–1645). The 3-year transplant-related mortality, relapse, overall survival and disease-free survival were 24% (95%CI: 18–30), 22% (95% CI:17–27), 57% (95% CI:50–64) and 54% (95% CI:47–61), respectively. The 1-year and 3-years probability of cGVHD-free/relapse-free survival (CRFS) were 65% (95% CI:59–71) and 52% (95% CI:45–59), respectively. Our findings support the use of ex vivo CD34+ selected TCD allograft as a calcineurin inhibitor-free intervention for the prevention of GVHD in patients with acute leukemia and MDS.