PurposeThis study aimed to compare the outcomes and toxicities between patients treated with image-guided radiation therapy (IGRT) using fiducial markers and non-IGRT in intensity-modulated radiation therapy (IMRT) for prostate cancer. Methods and MaterialsIn total, 518 patients with intermediate- and high-risk prostate cancer received IMRT with 78 Gy in 39 fractions after neoadjuvant androgen deprivation therapy for at least 3 months. Of these patients, 371 were in the non-IGRT group and 147 in the IGRT group, including the IGRT-A group using the same margins as the non-IGRT group and the IGRT-B group using reduced margins. The median follow-up periods for the non-IGRT, IGRT-A, and IGRT-B groups were 99 months, 88 months, and 63 months, respectively. Results: The 5-year biochemical recurrence-free survival rates in the non-IGRT, IGRT-A, and IGRT-B groups were 88%, 95%, and 98% (non-IGRT vs. IGRT-A: p = 0.396, IGRT-A vs. IGRT-B: p = 0.426), respectively. Those for intermediate- and high-risk patients were 94%, 93%, and 96% (non-IGRT vs. IGRT-A: p = 0.916, IGRT-A vs. IGRT-B: p = 0.646) and 87%, 96%, and 100% (non-IGRT vs. IGRT-A: p = 0.500, IGRT-A vs. IGRT-B: p = 0.483), respectively. For the non-IGRT and IGRT-A groups, the rates of acute grade ≥ 2 gastrointestinal (GI) toxicities and late grade ≥ 2 genitourinary (GU) toxicities were 17% and 7% (p = 0.019); and 28% and 16% (p = 0.028), respectively. In the IGRT-A and IGRT-B groups, the rates of acute grade ≥ 2 GU toxicities were 45% and 21% (p = 0.003). All V60Gy and V70Gy values of the bladder and rectal walls in the IGRT-B group were smaller than those in the IGRT-A group. Conclusions: IGRT with fiducial markers results in lower acute and late toxicities compared with non-IGRT in IMRT for intermediate- and high-risk prostate cancer. Moreover, the toxicities are further decreased by reducing the margins in the treatment planning under IGRT. These processes do not decrease the biochemical recurrence-free survival rates.