I would still apply, but they may have a flat cut-off. I would put the addendum where you list GPA before and after diagnosis. I wouldn't include the doctor's notice, but I would just put diagnostic history available on request. Also, list GPA in major if it is higher. But there is a chance that the system will kick you out without review if they have GPA coded into it. This is more likely to happen in professional schools (law, medicine) but sometimes they use the same software.