The water is not a problem for geology since geology does not believe water ever covered or mostly covered all land on earth.
In the early Paleozoic and at other times in the Earth's history, water coverage of the continents has been very extensive. Many times the seas have extended into Minnesota, to elevations that are currently in the area of 1500 feet about the current sea level. This coverage includes areas that have been tectonically stable for 1 billion plus years.
Of course, the geography and topography of the Earth has changed vastly in the past 600 million years, and as such, considerations of what the current topography is is irrelevant.
So, there is a history of great sea level rises and falls. The primary causes of these are thought to be increases and decreases in the rates of oceanic sea floor spreading - Fast spreading results in the oceanic floors rising, which displaces water onto the continents.
Explaining these sea level changes in the context of it happening over million year time spans is no problem to mainstream science. Explaining how it could happen in a year or so is vastly more difficult.
Moose