How big is your drive? Do you really need more then one partition?
It doesn't make any difference apart from cosmetics. The problem with having your system files on a different partition is expansion. Are you going to install your programs on the second partition? you will need to take that in to consideration when carving up the drive.
I all honesty I'd just have one big drive. Saves complexity
I just thought it was better to have system files on one partition, and normal files (music, videos etc) on another?
that's exactly what i do. if windows goes belly up, you don't have to faff about trying to recover documents before you re-format. of course it offers no protection against hard drive failure but you'd obviously keep backups of anything that is important to you.