To describe outcomes and toxicities of a large single institution cohort of patients with anal squamous cell carcinoma (SCC) treated with intensity-modulated radiation therapy (IMRT). Patients treated with definitive intent IMRT for anal SCC at our institution from 2005 to 2018 were identified. Actuarial control and survival rates for locoregional control (LRC), freedom from distant metastasis (FDM) and disease-free (DFS), colostomy-free (CFS), and overall (OS) survival were calculated by the Kaplan-Meier method. Acute and late toxicities were assessed by the National Cancer Institute Common Terminology Criteria for Adverse Events version 5.0. Three hundred thirty-two consecutive patients with a median follow-up of 36 months were treated with definitive intent IMRT for anal SCC from 2005 to 2018 at a single institution. The cohort included 243 (73%) women and 89 (27%) men with median age of 60 years with 49 (15%) stage I, 78 (24%) stage II, and 205 (62%) stage III disease. Median dose to the primary tumor was 50, 54, and 56 Gy for stage I, stage II, and stage III disease, respectively. Of the 158 patients tested for HPV, 87% were positive for either p16, HPV, or both by immunostaining and/or in-situ hybridization. 327 (99%) patients received concurrent chemotherapy largely consisting of mitomycin in combination with fluoropyrimidine (N = 316; 97%). The actuarial 3-year LRC, FDM, DFS, CFS, and OS rates were 87%, 88%, 77%, 82%, and 88%, respectively. Patients who developed a locoregional recurrence had worse FDM (57% vs. 92%, p<0.001), CFS (16% vs. 91%, p<0.001) and OS (53% vs. 92%, p<0.001) at 3 years as compared to patients without locoregional recurrence. Of the 37 patients with locoregional recurrent disease, 25 (68%) underwent salvage surgery, which resulted in no difference in FDM (57% vs. 62%, p = 0.463) but improved OS (62% vs. 39%, p = 0.016) as compared to patients with locally recurrent disease managed non-operatively. In comparison to patients without locoregional recurrence, surgical salvage patients had significantly worse FDM (64% vs. 92%, p<0.001) and OS (62% vs. 92%, p<0.001). Grade 3+ acute toxicity included dermatitis (11%), proctitis (2%), diarrhea (2%), fatigue (2%), nausea (1%), oral mucositis (<1%), and cystitis (<1%). Late grade 2+ toxicity rate was 12%. IMRT provides excellent clinical outcomes for patients with SCC of the anal canal with manageable acute and acceptable rates of late toxicity. Patients with locoregional recurrence had worse overall survival. While, surgical salvage was effective in approximately 70% of patients with locoregional recurrence, these patients remained at higher risk for distant metastatic disease and death. Upfront locoregional control correlates with long term survival in patients with anal SCC.