Sorry to rake up an old thread, but I was thinking about this Melodyne "blobs not lining up" issue tonight. Could it possibly be (and bear with me here

) that this is -at least in some cases - two adjacent slip-edited clips each with their own region FX? Because the first Melodyne region is going to show the blobs not only from the visible part of the clip but
also the rest of the clip that's been slip edited out of sight. So when you play back the audio, the Melodyne cursor is going to continue on past the point of the slip edit to the "hidden" part of the clip. But on Sonar's timeline, of course, playback goes on to the
2nd clip. In other words, the Melodyne window is not a direct mirror of what's going on in the track, it's showing what's going on in the clip, part of which may have been slip-edited away. I hope I'm making sense here. Probably not.