The present study aims to estimating the prevalence of autoimmune thyroid disorders in Iraqi infertile women with polycystic ovary syndrome (PCOS). Eighty-five Iraqi women, with age range (19-45) years, were divided into three groups; first group included 33 women with PCOS; second group included 30 women without PCOS; while third group included 22 fertile women as controls. The clinical data [age, body mass index (BMI), and menstrual status] have been recorded. Blood samples were collected to determine the levels of reproductive hormones [estradiol (E2), luteinizing hormone (LH), and follicle stimulating hormone (FSH)]; and thyroid hormones [triiodothyronine (T3) and thyroxin (T4)]. Also, autoimmune thyroid antibodies assessment has been carried out to determine the titrations of anti-thyroid peroxidase antibody (Anti-TPO Ab) and anti-thyroglobulin antibody (Anti-TG Ab).The findings revealed that thepercentage of obese was significantly (P<0.01) higher in the women with PCOS and without PCOS (66.67% and 53.34%, respectively) compared with the control women (9.10%). Also, more of the infertile women with PCOS and without PCOS (51.51% and 46.67%, respectively) had oligomenorrhea. The results of hormonal analyses revealed that non-significant (P>0.05) differences were found in levels of E2 and FSH among the different groups. A significant (P<0.05) increase was recorded in level of LH among PCOS group compared with control and without PCOS groups. Also, LH/FSH ratio was increased significantly (P<0.05) in PCOS group compared with control and without PCOS groups. On the other hand, the results of thyroid hormones showed non-significant (P>0.05) differences for T3 and T4 levels among the studied groups. Autoimmune thyroid antibodies assessment showed a significant (P<0.05) increased in the Anti TPO Ab titration among the infertile women with and without PCOS compared with the control; while there was a non-significant (P>0.05) difference between infertile women with PCOS and without PCOS. A significant (P<0.05) increased in the Anti TG Ab titration was found among infertile women with and without PCOS compared with the control group; also, a significant (P<0.05) increased was found in the infertile women without PCOS compared to with PCOS. Correlation between autoimmune thyroid antibodies and the studied hormones in women with and without PCOS revealed only a significant (P<0.01) positive correlation between Anti-TPO Ab titration and LH level (r=0.26); while a non-significant correlation has been found between Anti-TG Ab titration and the studied hormones.