There is no "Restore workspace layout" option. I'll put that on my list for the next fix/patch. If I think of some other workaround you can use until then, I'll let you know.
Toggling tool-windows from View>Tool Windows doesn't make sense any more since you can have multiple instances of a tool-window (which one am I toggling). It violated PoLA (Principle of Least Astonishment). You can close a tool-window by hitting X on the titlebar, right-clicking the titlebar and selecting Hide, or right-clicking the tab and selecting Hide.
++rodney