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If you still have a problem, please check to be sure you do not have overcut selected. Go to Edit -> Preferences -> Advanced. and scroll down to the bottom. UNCHECK the 'Software Overcut' option, if it is selected. Then click "Apply". That should fix your problem (see image at the right).
Btw, , I NEVER download a new version until at least a week or two later, just for these very reasons. I let other people be "beta testers" before I deal with a new version. And then I research to be sure the bugs did get fixed... After Silhouette first released v.3 with all of its inherent issues, I quickly grew tired of being their free beta tester... jmho.
-Dayle