Melodyne 5 Extension not working properly on certain clips

I have an audio track on a particular CPR. I split it into several clips and try to apply the Melodyne 5 Extension to each separately. And on some clips, the wrong clip appears -and- the edits don’t sound. So, I remove the Extension, bounce the clip and then try applying Melodyne to that new Clip. Same problem. Melodyne seems to be ‘remembering’ the new clip as if it were the ‘old’ clip.

Am I doing something wrong or is this a bug? Any workarounds?