For the toolbars, it should be done by done by checking them in "View -> toolbars", except for the situation, that they have been moved outside the screen.
If that's the case, you have to delete the current layout as mentioned by MortenMacFly.
The watches window (and other debugging windows) can normally be switched on via "Debug -> Debugging windows". Be sure to activate the perspective, you wnat to appera it before. If you want it to appear while debugging (the normal case, I think), you should do this, if you are in a debugging session or after switching to the perspective "Debugging" ("View -> Perspectives").
In any cases, don't forget to save the perspective, if C::B asks you, or do it manually ("View -> Perspectives -> Save current")-