Losing track of birth control pill cycle

I have 2 questions regarding birth control pills...
I started taking my first set of pills about a month ago and according to how many I have left, I still have one day to go. However, I must have done something wrong as today is a Tuesday, I have taken the next pill, yet I still have one last pill left for Tuesday. 
- If I change the day that I start my pills on for every cycle, will that make a big difference?
Today I took my pill on time, yesterday I took my pill on time, the day before I took the pill 6 hours late and the day before that I took it 4 hours late. My boyfriend came inside me yesterday night. - Is that ok?
Also a question not regarding BC pills.
When my boyfriend penetrates (even fingering), the process for me is extremely painful and usually remains painful throughout. - Is this because I am not aroused enough? Is this because the sex may be too intense/I'm doing it too frequently? Is there something I should see a doctor about?