Migratory flows and international travel are triggering an increase in imported cases of schistosomiasis in non-endemic countries, with serology being the recommended method for screening migrants. The present study aims to evaluate, for the first time, the LAMP technique on patients’ urine samples for the diagnosis of imported schistosomiasis in a non-endemic area in comparison to a commercial immunochromatographic test and microscopic examination of feces and urine. A prospective observational study was conducted in sub-Saharan migrants attending at the Tropical Medicine Unit, Almería, Spain. For schistosomiasis diagnosis, serum samples were tested using an immunochromatographic test (Schistosoma ICT IgG-IgM). Stool and urine samples were examined by microcopy. Urine samples were evaluated by combining three LAMP assays for the specific detection of Schistosoma mansoni and S. haematobium, and an assay for the genus Schistosoma. To evaluate the diagnostic accuracy of Schistosoma-LAMP in comparison to microscopy and Schistosoma ICT IgG-IgM test, a Latent Class Analysis (LCA) was performed. A total of 115 patients were included; 21 patients (18.3%) were diagnosed with schistosomiasis confirmed by microscopy, with S. haematobium being the most frequent species identified (18/115; 15.7%). The Schistosoma ICT IgG-IgM test resulted 100% positive and Schistosoma-LAMP was 61.9% positive, reaching as high as 72.2% for S. haematobium. The sensitivity and specificity estimated by LCA, respectively, were: 92% and 76% for Schistosoma ICT IgG-IgM, 68% and 44% for Schistosoma-LAMP and, 46% and 97% for microscopy. The Schistosoma-LAMP technique presented a higher sensitivity than microscopy for the diagnosis of imported urinary schistosomiasis, which could improve the diagnosis both in referral centers and in centers with limited experience or scarce resources and infrastructure.