My guess is that the rains and wind washed some stuff into the pool and increased your chlorine demand. You also had some time when the FC was low because of the rain and the inability to chlorinate which can allow something to take hold, Most likely it's a nascent algae bloom or some extra organic matter in the water. The fact that there is a bit of CC is a good indicator, even if the water is clear.

This is pretty common here in Florida during our 'wet' season. (Florida only has two seasons, wet and dry! Most people don't realize that the Everglades is considered to be desert in winter because it loses more water than it gets in precipitation.)
Don't lose any sleep over it and just shock the pool to correct the problem. What you describe is fairly normal.