MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.

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In short you can only have one gear per part file. There are several different ways of extracting a dumb model and inserting several non-configurable gear blanks into a part file and create configurations that way. Check with the solidworks community for tips on how to do that.