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I always go with one smaller three ring binder for each class and a folder to put any handouts or graded work into. I just buy a huge stack of looseleaf paper at the start and fill up both pages with notes from either the reading or the class lectures. It's also very handy to date your notes so you know when you were talking about certain things and also you should write the main topic or point of the lecture at the start. I can't tell you how many times I've gone back and looked at things and had no idea what the general theme was.
Also, once you decide your major (sounds like bio?) keep your notes at the end of the year. Put them in a big binder and organize that all by class, you'll be surprised how often you'll go back to it.
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When the going gets weird, the weird turn pro.
-Raoul Duke
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