Eclipse Find/Replace not working
I had a similar issue after using second monitor at work. At home I was wondering where is my Find/Replace window... it was displayed at the second monitor as I used it last time... Eclipse stores the last location of the dialogs for better UX.
So try to move the Find/Replace window by using your keyboard.
How to Move an Open Window with the Keyboard
You can also try to reset perspective
Window > Perspective > Reset Perspective...
I had the same issue with Eclipse. My current version is Neon.3 Release (4.6.3).
This periodically happens where the Find/Replace does not work. Usually UNDO stops working also.
When this happens, Ctrl+F, Ctrl+Z do not work, and Undo Text Change and Find/Replace... are grayed out in the menu.
I tried the above solution Window > Perspective > Reset Perspective...
That fixed it right away!
Thanks