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.
I think the file for the base may have some issues (possibly just messed up when stored with thingiverse?) I cannot get it to slice nicely with Slic3r. I get gaps at several layers (see attached image). Are you using Slic3r?