Yes its about balancing the two... States each have their own laws, their own governance and their own cultures (to an extent)...A state is more like a country in some ways.
Its a bit like saying the USA should be able to dictate what the middle east can do in the UN simply because we have more people... If a state wants to keep its population down, and its people are **responsible** enough to keep a low population which is healthier for the people and environment, they shouldnt be penalized for it... It makes a great deal of sense that each state gets its own vote that is only partly weighted by population, and partly flat.