I have done several different methods of applique and for quilts that will see some use and washing I have discovered that the satin stitch or the blanket stitch with fusible wonder under (or similar) seems to last the longest. I sometimes incorporated several methods in one quilt if it seems appropriate for a better look. I have made 10 or so applique quilts for my grandchildren and most have been surviving quite well. I think they all use them on their beds. When I can I also use the Eleanor Burns method on larger pieces, but not on small ones.
Trial and error were my teachers...each time I make one I do something a little different.