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.
Hi Duality. I can see your problem clearly in the OpenSCAD rendering. Some parameters have to be changed to make the extruder suit your needs. I did some quick changes (see comments "@CHANGE") and pasted them on http://pastebin.com/iJApXQLB
Please give it a try. I'm looking forward to hearing from you and see some pictures of your print.