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I'm a having an interesting result from printing the top piece.(The bottom printed perfectly).

The issue is the screw holes, their walls are really thin and the resulting print doesn't reflect the model. I've changed from 4 to 2, to 6 perimeters in hopes that it would improve, but it hasn't. Had anyone else had and resolved this issue?

Any idea what's happening? Its very strange. I'm using MatterControl on Linux.