Scientific research can be thought of as a process of asking questions of Nature. Perhaps it’s worth exploring that concept in a little more detail.
It is true that many scientific advances have started with a question. And the process of research can be considered a way of asking Nature questions. But the kind of questions that we can ask Nature are very specific.
First, the obvious: Nature doesn’t have a voice. Interviews are out. So we need to look for evidence instead.
The language that I’m using resembles a criminal investigation, and that’s deliberate. Scientific research is in fact very much like forensic work. We look for evidence, we analyse things that we observe, we try to find patterns and unravel processes. Forensics is all about mechanisms: how the crime was perpetrated. However, there’s usually an accompanying part of a criminal investigation, and that is the literal question-and-answer stuff. By interviewing a suspect, the investigator can try to unravel the question of motive. Forensics, for all its strengths, is powerless to address “why” questions. This, again, is like science.