I don't think Ben is her biological father. She was kidnapped as an infant so she would have no way of knowing.
WOW, what a great episode. We've never gotten this many answers at once before :
The Others are still VERY likely part of Dharma.
The connection they have to the outside world is very real.
They obviously recruit fertility scientists - it's likely they recruit from the other fields Dharma researches as well.
At least some of the Others do NOT remain on the island by choice.
Mr. Friendly really is friendly.
Jack is a crappy surgeon.
Either Juliette has powers similar to Walt or the Dharma people will go to any lengths to recruit the people they need.
But man, this raises so many questions too :
Why allow people to live on the island at all if it is a CURRENT research facility?
If there is easy contact with the outside world, why has so much of the project fallen into total disarray?
What was Juliette's fertility research about?
If Ben doesn't make decisions alone, what is the command structure like?
What has happened in Juliette's life that lets her kill so easily? She didn't hesitate at all when she shot Danny and felt no remorse at all.
Why is Alex so important to her father? (Which we're assuming is Ben.)