I guess I don't get the purpose of your imagined example. What are you trying to get at?
Okay.
(wow)
Okay ... God completely inundates the earth from above and below.
Destroys everything and everybody (except those in the Ark).
Everything is floating around like a big giant landfill.
Bones, trees, trilobites, people, birds, dinosaurs -- all floating around everywhere.
God orders the waters -- (with a lot of the "floaties" in it) -- to "siphoning points" for removal from the earth.
God takes the muck and the mire and the bones left lying around and layers them according to some predetermined order -- (that He predetermined before the earth was ever created).
Layers the trilobites, layers the dinosaurs over them, layers the people over them.
Then He "blow dries" everything until it's all solid.
Calls forth soil, calls forth trees, calls forth shrubs, calls forth grasses, etc. and so on.
Noah sends out a dove, which plucks an olive leaf off and brings it back to the Ark.
Noah and company disembark.
(Let's see where this goes.)