Hi,
Welcome to ehealthforum,
Brown vaginal discharge that you describe could be suggestive of breakthrough bleeding, infection, hormonal changes, endometritis, PCOS, pregnancy, etc. If you have been sexually active around ovulation time, pregnancy chances are possible especially if you have not been regular in taking the active pills or have taken them late by more than 2 hours from scheduled time (the pills will not give you effective protection). If pregnancy is suspected, you should consider visiting your doctor/gynecologist for thorough examination (to confirm pregnancy related changes/signs in body) and blood/serum HCG level test (to confirm/rule out pregnancy accurately). If pregnancy gets ruled out, consider requesting your doctor/gynecologist for a vaginal swab/smear test done to confirm/rule out infective causes. Hormonal analysis done would rule out chances of any imbalances. Ultrasound scan done will help to rule out other problems like PID, endometrial problems, PCOS, ovarian cysts etc. Get started on treatment as indicated by examination findings and investigation results. Your gynecologist might also consider stopping the hormonal birth control use. Be in regular monitoring and follow-up with your treating doctor/gynecologist and report any new/abnormal symptoms immediately. Drink plenty of water. Take adequate rest. Maintain healthy diet and lifestyle. If infective cause is detected, and if you are sexually active, get your partner also treated simultaneously, and avoid having intercourse while being on treatment to prevent chances of re-infection.
Take care.