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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That's a major bummer. But if short screws are one 1 printer then they may be on many more.
To stop you from needing to trim the mount holes i have uploaded a Short_3 version with mounts that are half
the width of stock. Please let me know it that gives you enough room.