The first and probably most important is a planner. There are a lot of different kinds and your school might give you one, but mine is a Plum Paper Planner and you can order one here. It is personalized so I have my name on the front and there a lot of other personalization options and add ons.
I use mine to write down assignments, appointments, events, and my work schedule. I don't have any fancy color coding system, I just use pencil since plans and things so often change.
In terms of notebooks I have a new favorite thing.
This notebook is the perfect combination of a notebook, binder and folder. It has three rings that are basically indestructible, but they go through the whole thing so you can fold the notebook all the way around like a notebook. If that makes sense. So I have each divider labeled for my classes (I'm taking 5, but these are the only ones I need sections for) with washi tape and have paper for taking notes right behind the divider. The divider is also a folder so it holds all of the handouts, etc.
Being an absolute list addict, I have 10-15 lists going. It's a problem. But it also keeps my brain from setting on fire. Target has the cutest notepads/sticky notes and I have a lot of different types of list such as:
-current homework assignments
-things I need to print
-Blog post ideas
I'm also pathetically obsessed with binders. It's probably unhealthy, I don't know.
I keep these binders in a tub under my bed and I have a drawer in my desk designed to corral all of my school things in one place.
This keeps me from running around the house looking for my books before class like a crazy person.
So overall it's pretty simple things that make a difference in keeping things in order and maybe it will get me to a 4.0 gpa ;)