Suppose that by moving the cleat toward your arch, you actually made your right leg effectively shorter (since your toe normally points down at the bottom of the pedal stroke, not up ), causing it to extend a little more, and by raising your saddle a smigden, your right leg was also required to extend that much further. It would be interesting to photograph yourself from both sides with the nearside foot at the 6 o'clock position, then measure the knee angle to see if there is any difference.