[mr breeze]

Originally Posted by joujoujou

You're not the only one with that problem:

http://bugs.madshi.net/view.php?id=259

http://www.goldwave.ca/forums/viewtopic.php?p=4496

https://hydrogenaud.io/index.php?topic=14016.0

If I was you, I'd convert it to flac and then resample. Or just use something else for the task.

Do you mean use something other than cd wave editor to separate the tracks?
Maybe there is a switch in cd wave editor in preferences having something to do with it???