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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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OK, got the lids to show up correctly in Simplify3D by importing them into Microsoft 3D Builder and saving them as a .stl file. Then importing the saved .stl file from Microsoft 3D Builder into S3D. Thanks for that information.