Did the pull-out method fail me? Late period.

Since you took the morning after pill multiple times within a month may have altered your menstrual cycle and caused a delay in your period. But there is still a possibility of pregnancy even if you have taken the morning after pill. Because emergency contraception is not 100% effective in preventing pregnancy, and repeated use of the pill within a short period of time may decrease its effectiveness.

Menstrual bleeding patterns often change when hormonal tablets are administered. But, if your menstruation continues for too long than usual then medical help of a gynecologists is required.

Its a rare congenital condition that occurs during fetal development. Generally most congenital abnormalities including penile agenesis are not preventable. They can result from a combination of genetic, environmental, and developmental factors that are often beyond our control.
It is also important to seek emotional support and counseling to address the feelings and challenges you may be experiencing.

Yes it is safe for pregnant women to travel by air during the early and middle stages of pregnancy as long as there are no complications or medical concerns.

Missed periods could indicate various possibilities, including pregnancy. Spotting a week before your expected period could be an early sign of pregnancy, but it's also important to consider other factors that might be causing the delay. Take a pregnancy test for confirmation

There are many different reasons why someone may experience brown discharge after their period. It is not necessarily an indication of pregnancy. It could be caused by hormonal changes, stress, or irregularities in the menstrual cycle. Feeling tired all the time, nausea, or tenderness in your breasts can be signs and symptoms that suggest you might be pregnant. To be sure, take a home pregnancy test. 

Pain in your vagina, after your boyfriend touched it with his finger, could be due to irritation or a small tear. The pre-ejaculate fluid he had on his hand doesn’t typically contain sperm but still can carry some risk of pregnancy or infection. It’s important to always practice safe behaviors and consider using protection to prevent any unwanted outcomes.