Bookmarks are very convenient when revisiting web sites over and over again. The more Bookmarks you add in safari, the more potential there is for serious clutter. I typically go through and clean house on my Bookmarks about once a month. If I haven't used it in the last month, it's outta here!

The easiest way to do this is to click on the Bookmarks button on your Bookmarks bar. It looks like this:

Once there, all of your Bookmarks will appear in the appropriate organized fashion. Below is what mine looks like. Notice that the folders match those on my Bookmarks bar:

From here, you can delete, rename or move any of the Bookmarks you need to. There is no right or wrong way to organize your Bookmarks. It's whatever makes sense to you.