A recent Farm Press article gives a good description of how Hurricane Sally is expected to affect crops in Alabama. Cotton and pecans are the most likely to be affected because they are still a month from harvest and need good conditions to reach harvest successfully. The heavy rain and winds are likely to cause problems for the fields and trees that hold the crops, potentially reducing yield and quality. The corn crop is mostly complete and while peanuts are also being harvested, they have some flexibility to wait until the soil dries out before they resume harvesting. You can read more here.

Cotton damage from Irma at Stripling Irrigation Research Park