I found out that when I undocked the search window and unstuck it, then that was when I had problems (as discussed in another thread), because that changed the layout again when I did another search, so I was continually having to stick and unstick the different windows and resize.
I found out that if I dock the Commentaries, Books, and Search windows all in the middle of the right side, then I can have one displayed at a time, with tabs at the bottom to easily choose between them. If there are one or more search results, they will also be listed at the bottom too - with an arrows you can click on to choose the other search results. Hope that made sense. This also seems to solve the problem I was having (mentioned above).
Now, this works for my preferred setup - having the Bible on the left, and one thing displayed at a time on the right. I am not sure how this would work if someone wanted two panels displayed on one side.