Purpose Persistent Mullerian duct syndrome (PMDS) is characterized by the persistence of Mullerian structures in male with normal phenotype. Most cases occur as a result of mutations in theanti-Mullerian hormone (AMH)orAMHR2genes. In this study, we aim to discuss the results of clinical, laboratory, and molecular genetic analysis of cases detected to haveAMHR2gene mutation. Methods A total of 11 cases from 6 families were included in the study.AMHR2gene mutation analyses were performed by sequencing of the coding exons and the exon-intron boundaries of the genes. The American College of Medical Genetics guidelines were used for the classification of the detected variants. Results Six of the 11 cases were admitted due to bilateral undescended testes and five cases due to inguinal hernia (three transverse testicular ectopia and two hernia uterus inguinalis). All cases had normal AMH levels. Seven different variants were identified in the six families. The variants detected in four cases were considered novel (c.78del, c.71G > A, c.1460dup, c.1319A > G). Two of the novel variants were missense (exon 2 and exon 10) mutations, one was deletion (exon 2), and one duplication (exon 11). Conclusion We identified four novel mutations in theAMHR2gene resulting in PMDS. Duplication mutation (c.1460dup) in theAMHR2gene causing PMDS was demonstrated for the first time. The most important complications of PMDS are infertility and malignancy. Early diagnosis is vital to preventing malignancy. Vas deferens and vascular structures may be injured during orchiopexy. Therefore, patients should always be referred to experienced clinics.