For example, we could ask: Why do birds sing
This is liable to produce "reason" answers. They sing to communicate. More specifically they mark territory, make mating calls etc. That's why they sing.
When we ask why a species of animals exhibits some feature, we might also give an answer based on the theory of evolution. I don't see any significant distinction in scope between that kind of "why" question and the question of why God might have done such a thing.
Perhaps a distinction is that only religion professes to provide answer ultimate why questions. Every answered scientific why question can be followed up with yet another question of why things should be as discussed in the answer.
The same is not true of the religious why questions. At some point after God is cited as the answer, the questions are cutoff arbitrarily as being beyond the ken of mortals or even blasphemous.
Under a government which imprisons any unjustly, the true place for a just man is also in prison. The proper place to-day, the only place which Massachusetts has provided for her freer and less desponding spirits, is in her prisons, to be put out and locked out of the State by her own act, as they have already put themselves out by their principles. Thoreau: Civil Disobedience (1846)