Jeff, the scenario that seems most likely to me is that the Electra was swept off the reef, essentially intact, by a large wave or swell. It floated out for a short while, pushed away from the shore by the easterly trade wind, as it gradually took on more and more water. Loosing bouancy, it began to sink almost vertically. Gaining vertical descent speed as more and more air was forced from any remaining pockets, the aircraft fell 985 feet (the depth shown on the 2010 SD video) and, intact until contact, hit the bottom. Then minimal displacement of objects took place, being that many components were tied together by control wires, HF antenna cable, conduits, fuel lines, electrical lines, and stringers.
But, of course, other scenarios may be possible. And if what appear to be two bodies are actually those of the crew, it begs the question of when and how they met their demise.