How can I stop from second window opening small in Safari and browser bar floating in and out like the dock?

Every so often I will click on a link in safari and it opens a second window. It opens it  small. I can click the two diagonal arrow in the upper right hand corner and go to full view but then the browser bar at th top and all  the Safari stuff like file, edit, view, history etc float up out of site. Much like the disappearing dock I can get it come back by going up by it. This is very frustrating. I have fixed it in the past but each time it is very difficult to find out how to do it. First why does this start happening? and if it does how can I get it to go back to the normal way? I will then bookmark the answer so I will be able to fix it quickly if it happens again.

I may not have called things the proper name. I am re-wording this now. Hopefully this makes it clearer.
Every so often,(3 times in 4 months), I will click on a web site and a new window will open much smaller than the standard window. I can enlarge the window by click the two arrows in the upper right hand corner but the menu bar disappears and reappears if you hover over it. I tried what some said above and when the window was small dragged it to the same size as the window under it, menu bars all visible. I closed that window and reopened it and it opened small again. I can go for several weeks and all additional windows open the correct size and with menus visible, then it goes into this mode. Everything running Lion 10.7.2 and Sarafi 5.1.1    
I straightened it out one time or got it to stop doing that but don't remember how I did it. My husband fixed it the second time and he isn't around today. Anyone able to help?

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