Yeah don't do that. Take one pill every day at the same time and you will be fine.
How long has she been on the pill before now?
However, you have a lot of leeway about the timing, you don't have to worry until you're really late multiple times.
It takes a few weeks after you had sex for a pregnancy test to work. Her cycle is probably messed up because of the extra pill.
If you are taking the pills correctly, you do not need to pull out, you do not need to use condoms, and you do not need to freak out if you have sex! That's why we take the pills, right?