Increased risk of a second primary malignancy (SPM) before or after the diagnosis of anal squamous cell carcinoma (ASCC) in patients has been reported in a previous single-institution study of 46 patients. We hypothesize that patients diagnosed with ASCC are at increased risk for developing second cancers. Here, we present a large-scale report of incidences of cancers diagnosed prior to or after a diagnosis of ASCC using data from the US population-based SEER registries. We employed the SEER registry data to conduct a US-population based study which included patients diagnosed with ASCC who survived a previous primary malignancy as well as patients who first receive a diagnosis of ASCC and then developed another malignancy. In patients diagnosed with ASCC who survived for a minimum of 2 months, we evaluated the risk of subsequent cancers and the risk of developing ASCC as a second primary. Standardized incidence ratios (SIR) were calculated for all secondary cancers by using the ratio of observed to expected (O/E) second cancers. The expected number of cancers is calculated for a matched reference cohort. Confidence intervals and p-values are at 0.05 significance alpha levels and two-sided based on Poisson exact methods. All analyses were conducted with statistical program SEER∗Stat version 8.3.5 provided by the National Cancer Institute utilizing the multiple primary SIR tool. Our data is selected from the SEER 9 Registries November 2018 submission using cancers reported between 1975-2016 (n = 3,600,102). The baseline cohort for this analysis consists of individuals diagnosed with primary ASCC (n = 7,594). We found that these patients were at increased risk of diagnosis with a second primary malignancy (∼13%); of these, cancers of the lung, oropharynx, vulva, oropharynx, or a second anal/colon cancer predominated. In patients diagnosed with primary ASCC, excess risk (ER) for a second primary diagnosis of lung cancer in men was calculated to be 36.52 and in women was 23.67. The risk of a second cancer in the colon/rectum/anus in men was elevated (ER = 21.42). In women, vulvar cancer carried the second-highest risk of second primary diagnosis (ER = 10.02). We also determined that patients diagnosed with ASCC had an increased rate of previous malignancy (∼17%), most commonly Kaposi sarcoma or vulvar cancer. For men, ER of ASCC after Kaposi sarcoma diagnosis was 11.61. In women, increased risk was associated with a first primary diagnosis of vulvar cancer (ER = 4.91). Our findings support increased surveillance and screening for second malignancies in patients with these cancer diagnoses, as patients with ASCC are often either survivors of a prior cancer diagnosis or are at increased risk of developing later malignancies. This could be related to chronic immunosuppression from cancer therapy or mediated by Human Papilloma Virus.