I'm not sure - but what I'd do next is run Massive in Standalone Mode and try a few quick simple tweaks on a sound you don't really care too much about and see if it happens there first.
If so, then it's isolated to Massive as opposed to a Sonar issue.
Next, after saving that new edited sound, open Sonar, insert Massive, and make sure that sound is the same as it was in Stand alone mode.
Try saving the whole thing & reopening it all then.