That's a good point and something I'd never thought of regarding the vertical placement of the toolbars. I have a large widescreen monitor at home, with lots of wasted space on websites with fixed widths. It might make more sense to have my menus on the left.
I wasn't aware of the bug with folders and autohiding the bookmarks bar. I don't use it that way, but hopefully they can come up with a fix because I'm sure you can't be the only one who does.