My girlfriend was 5 weeks pregy and taken 3 cytotec.1 vaginal and 2 oral.then after 5 hours and several days slight blleding, spotting and brownish discharge was noted in his pad.then we decided to keep the baby.now were worrying if the baby will be affected or any congenital malformation happen or the so called mobius syndrome? Please help

You will need to see you own medical practitioner with your concerns.
This is NOT the sort of matter that can be diagnosed without an actual physical examination.
You really should read this though: http://en.wikipedia.org/wiki/Misoprostol#Induced_abortion