So what replaced this water during said flood?
If the oceans were shallower than today, it wouldn't take near as much water to cover the earth 1 -2 miles deep.
Sudden geologic shifting of mountains rising and oceans dropping.
A new model of the early Earth suggests that until around 2.5 billion years ago oceans covered almost the whole of the planet.http://www.telegraph.co.uk/news/earth/earthnews/4030604/Early-earth-was-a-waterworld-like-the-one-depicted-by-Hollywood.html
"The fountains of the deep and the windows of the heavens were closed, the rain from the heavens was restrained, and the waters receded from the earth continually."
Genesis 8:2-3a
The rain and fountaining lasted 40 days, and the receding took another 150 days, and that was just to the point where the tops of the mountains were seen.