Is there a
>>> at the far right of the top Icon (toolbar)? You toolbar has grown longer.
Preferences: Toolbars and Menu's: allows you to arrange things and specify which toolbar it appears on.

I moved Preferences and Help to The Menubar (no icon, only words).
My Main Toolbar is for Library wide tools. I use the Second (bottom) toolbar for Book related tasks..
Remember there are additional toolbar settings for when a device is connected (great for fine tuning: Remove items you would NOT use and ADD those that make dealing with a connected device better.
YMMV