I used a Note 10.1 for my entire second year and I can say that it's pretty good for school. But it really depends on what kind of courses you take. For most of my courses, we had PDF slides uploaded before lectures so I would just download them onto my tablet and use the LectureNotes app to annotate them. If you're dealing with a class where you have to write down a lot, then you should honestly just get a laptop/ultrabook.
You may consider the option of getting a bluetooth keyboard with your Note 10.1, but personally I feel it's not that convenient to carry around a separate keyboard for my tablet. Also, text integration is not very optimized in LectureNotes, my primary note-taking app. You could use those android word-processing apps, but they are a bit slow and are nowhere near as efficient as, say, Microsoft Office.
I wouldn't suggest a touch cover for your surface RT. It's horrible to type on. Get the type cover (although I've heard it is not even that much better).
So what kind of note taking are we looking at? Lots of diagrams/technical drawing, annotating pre-made notes, or writing everything that the prof says?