OK, that's a start. These are 14-bit NEFs, I assume. That assumed, I would say we are looking at about a 1.3 stop DR benefit for the D3X over the 1Ds3.
The standard deviations are 1.42 ADU for the ISO 100 NEF and 2.05 for the ISO 200 NEF. Looking at the histograms, I can see that the black clipping occurs at true mean black, as opposed to some older Nikons which clipped higher.
Clipping at black reduces apparent standard deviation of read noise, since the mean rises above black, as zeros which should be negative numbers pull the mean up. I have found in the past that a factor of about 1.62 needs to be applied, so now we are looking at 2.3 and 3.31, respectively, for ISOs 100 and 200. The 1Ds3 is about 5.4 at ISO 100 (as also are the 7D, 40D, 5D2, and most Canons are close these days), so pixel-level DR is better in the D3X at ISO 100, and I would extrapolate from this data that ISO 400 on the D3X has about the same pixel-level noise floor as ISO 100 on the Canons.
Since Canon tends to clip their RAW data low, and Nikon does not, there's probably an additional 1/4 stop benefit to the D3X.
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John