Could you upload the model you used as well?
If I change the Shell a little bit, it works great: (just 0.06mm added) Now I know, there are Limits, where Cura adds the missing Shellthickness to the only printed Wall.... (>=0.46mm)
http://www.dipic.org/TestBox_460.stl
Alternatively you could tell cura your nozzle was .39 or .38 and it should be fine.
Is this a desired Behaviour or a Bug?
Cura currently only does fully enclosed contours. With thin walled sections it cannot lay a contour and sometimes will refuse to print anything for that section. I have no plans to change this behavior, as the problem is difficult, and there are only a few edge cases where it is a problem.
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Dim3nsioneer 558
Cura might have a problem with 0.4mm thin walls. There are some ways to get reasonable results for thin walled thin boxes etc. You have to set infill to 0. Thin walls have been a subject in the forum before, e.g. http://umforum.ultimaker.com/index.php?/topic/3044-problem-with-stretchlet-stl, maybe you will find other threads too.
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