The solution that worked for me:
Switch from inline graphics to auto. It worked both in Spyder and in Jupyter notebooks.
Some background for my case (for those who may be quick to judge):
It used to work fine: I could open an image, it would load, and it would be responsive (doesn't say "Not responding", can close, focus, etc.) Then I installed some packages and ran some demo notebooks that apparently messed up some settings (Spyder open files were reset too).
I tried adding waitKey(1) (and 0, 30, 1000, etc values too). It made the image load, at least. But the image frame was "Not Responding": didn't refresh, couldn't close, didn't come to top, etc. Had to close using cv2.destroyAllWindows().
Note that everything worked fine during the duration of waitKey. I put this in a loop that shows the same image in the same named window and waits for a few seconds. During the loop everything works fine. As soon as the loop ends, the image window is "Not responding" (which looks like a GUI thread issue). I tried using cv2.startWindowThread(), and didn't make any difference.
Finally, changing from Inline graphics to Auto brought everything back to order.