As long as you are already enrolled in the course and have already taken the GRE, I do not see a problem with you applying in October/November. As long as you pass the required courses before the May orientation, you are set. There is a chance, however, that having incomplete courses may slightly hinder your application, but as long as your GPA and GRE are solid, it shouldn't pose too much of a problem; a significant amount of applicants are still finishing up courses when they apply.
Best of luck!
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