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.
You'll find that the files don't often import into Slic3r in the correct orientation. Always try to get the big flat side facing down. There are also a bunch of images included with the downloaded where he shows the proper orientation for printing some of the parts.