Let's see if I remember it all. The first way of saving is by finding one of those owl statues. If its wings are closed, strike it with your sword to open them, then talk to the statue. It'll ask you if you want to save. The second way of saving, I think, is to play the Song of Time. It saves your progress and takes you back to the first day, but there are some things you might need to redo.
I'd go and check on my N64 myself.......that is, if I hadn't traded it away for store credit at Gamestop. ;o