Truthfully, since you're only a few months off and have your degree, I don't think the last 8 months of schooling are going to be counted against you. I think you'll be okay. And yes, number 2 refers to the Japanese entrance exam at the school you want to go to, but it seems to be assuming that you didn't graduate, which you have. I think you should be fine, but if you're still unsure, your embassy might be able to clear that up for you.
Thanks very much akaitsume... I really hope they will accept my applications since I really can't afford to study further since it is expensive to enroll again just to get another 8 months of schooling...