Dysfunctional ovaries as in PCOD, thyroid gland problems, and starting and stopping birth control pills or any other birth control method can all affect your hormone balance. Clomid can also cause
spotting, or abnormal
menstrual bleeding, as a side effect .Depending on your detailed symptoms and medical history your doctor may recommend a pelvic examination and tests like urine examination, pregnancy test ,pap smear and other cervical screening tests.