Oral mucositis (OM) is an adverse side effect among hematopoietic stem cell transplantation (HSCT) recipients. The objective of this retrospective study was to evaluate the preventive effect of photobiomodulation (PBM) applied three times per week versus seven times per week in patients undergoing HSCT. The risk factors related to the incidence and severity of OM were also assessed. This was a retrospective study that evaluated 99 HSCT recipients who received different PBM protocols. Group I received three sessions per week, and group II received daily treatment. PBM was applied using a continuous-wave diode laser (InGaAlP; MM Optics, São Carlos, SP, Brazil) at a wavelength of 660nm (visible-red) and a total radiant energy of 0.24J per point. The baseline disease, type of transplant, type of conditioning, prophylaxis against graft-versus-host disease, OM grade, absolute leukocyte and platelet counts, and levels of liver and renal function markers were collected from medical records. The patients' age ranged from 13 to 71years (mean/SD, 40.54±16.45). No significant difference was observed between groups I and II regarding sex, age, ethnic, diagnosis, donor type, and conditioning treatment. Both PBM protocols were equally efficient in preventing OM (p=0.34, ANOVA). Independent of the PBM protocol used, patients who received allogeneic transplant (p<0.01-Fischer's exact test), total body irradiation (TBI-12Gy) (p=0.01-chi-square test), busulfan + cyclophosphamide (p<0.01-chi-square test), or methotrexate-containing regimens (p<0.01-Fischer's exact test) demonstrated higher OM incidence and severity. Myelosuppression (p<0.01-Mann-Whitney test) and impaired renal function (p=0.02-Mann-Whitney test) were also considered risk factors for OM. Based on this retrospective data, PBM was effective in preventing OM in patients undergoing HSCT even when it was applied three times a week. A prospective study might be necessary to confirm these findings.