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MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
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I added an image of the 20mm test cube before and after, the layer thickness is .25mm on each. I noticed that the smaller the layer thickness is, the more pronounced the wobble is.

http://www.flickr.com/photos/48982649@N07/sets/72157623637628343/http://www.flickr.com/photos/4...

I uploaded a video to youtube, but they are being slow to post it, I'll shout when it's up.