Yes, we have multiple brains. The conscious mind represents a small portion of our entire minds. Our whole mind is working all the time, but the work the subconscious mind does is at a disadvantage: it doesn’t come in symbols.
A major function of the conscious mind is communication. We need symbols in order to communicate with anyone else. Indeed, we need symbols to think with in the conscious mind. Only by perceiving symbols do we get a record of a thought process. Everything else happens in the dark, so to speak.
So the rest of the mind thinks all the time and is busy solving problems and it has to get these solutions into the conscious mind if we are to act on them, for the most part.
So suddenly these ideas appear in our conscious minds, and it seems like an epiphany sometimes. A ‘Eureka” moment. And at other times, we call it “intuition.” “A gut reaction.”
We can not see how these thoughts have been created, so we mistrust them. In order to trust them, we need to test them out, and see if they work. Of course, we are not at all at our scientific best many times when we test them out. So the idea that we’ve tested intuition and found it useful might be a type 2 error (found true when it isn’t really true).
But we’re thinking. All the time. Both visibly and invisibly to ourselves. There is logic to hunches, generally, but it may not be backed up by more rigorous analysis. For that reason, I think it is wise to be skeptical about your hunches.