If you never make edits (as in actually editing the text, not the formatting) in Book View, you never have to worry about "living with it." Converting what happens in Book View to html will always be subject to the whims of what QtWebkit and the other underlying libraries think best.
I know it's not a very satisfactory one, but the answer is to do the least amount of editing in Book View that you possibly can (if you have an opinion as to how the underlying code should look).
Look at Book View to make sure the edits you made in Code View had the desired effect.
Book View (WYSIWYG) editing is for people who don't really
care what the underlying code turns out looking like (and for people who don't mind manually cleaning up the code that Book View does generate). Everyone else should be editing in Code View.