I've put .40 S&W rounds in an M&P 9MM magazine and run the pistol - but the top round does seem to sit a little lower, there at the top. The M&P picked them up just fine and fed/chambered them.
Never tried it with a CZ. I understand the question though, given the cost of new magazines for the tactical sport pistols.
Try it, see if it will do it and how reliable it is.