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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Look at running your meshes through netfabb, seemed to fix it for me in S3D. Prusaslicer has it built in, witch is probably why it works there. https://service.netfabb.com/service.php