Will the baby still be okay?

Here is some quick background info. I have had really abnormal cycles since I came off of birth control. My husband and I started trying to get pregnant with baby #2 about a year ago. With these abnormal cycles it has been difficult to say the least. A few months ago we enlisted my ob/gyn to help us out. He prescribed clomid. I took the clomid the first month and then took the opk to try to pinpoint ovulation. I never got a positive opk, so I ume I didn't ovulate. But I also didn't start a period either. The doctor told me to take a pregnancy test and if it was negative I should take progesterone pills for 5 days and then try a higher dose of the clomid after I had a period. I took the test with a negative result and then took the pills. 2 weeks went by and no period. My doctor asked me to call him if I didn't get the period, which I am going to do tomorrow as soon as his office opens. Here is the big part. I was feeling kind of yucky the last few days and decided, just out of curiosity, to take another pregnancy test. In case that was the reason the progesterone pills didn't work. I fully expected a negative test, but I didn't get one. I got a positive test. And I'm thrilled!!! I am just worried about what the progesterone pills would have done to the baby. Will there be defects? A miscarriage? A healthy baby? I know the doctor will answer these questions, but as it is Sunday afternoon, I can't wait til Monday to get answers. Can anyone help me?