Nikon D3s RAW files are underexposed by Lightroom / Camera RAW

I'm used to shot RAW files only.
I recently bought a D3s, alongside with my D700 and I noticed D3s files were darker than D700 ones, by about 1/2 or even 2/3 stop. Initially I thought the problem was one of the cameras, but after some tests I found the problem is my RAW converter. Infact this happens only with NEF (RAW) files, and if I shot a RAW+JPG image, the D3s RAW file opened in Lightroom 4 (or Camera RAW) is underexposed if compared with its JPG on-camera version.
I think no camera setting is affecting this behaviour. I reset either the D3s and the D700. No D-Lighting is set on-camera. This happens only with the D3s and only with Camera RAW and Lightroom.
Other RAW converters display the D3s RAW file correctly exposed, the same as its JPG version, and the same as the D700 RAW and JPG. I tested so far Capture One, DxO Pro Optics and Raw Therapee.
Color profile used is custom, but I tried using Adobe Standard and the result is the same.
Default develop settings affect only color profile and sharpening, and I got the same problem on a fresh new installation of Lightroom where no default develop settings are set.
If anybody with a D3s can check if his NEFs are underexposed if compared to their JPG versions when opened in LR or Camera RAW, I would appreciate that much.
Any idea about the origins of my problem would be great.
Thank you.

alessandroavenali wrote:
I know, DdeGannes, but a different rendition of 2 pro cameras at the same settings is a bit frustrating.
Would it be better to underexpose the D700 while shooting, or setting a default -0,5EV on every imported picture, if the problem goes on?
Moreover, seems the Nikon D3s ISOs need to be pushed +2/3 to obtain the same exposure as the D700 in LR workflow. So the advantage of this great sensor could be lost.
I'd like to know more about D700 and D3s rendition comparison in LR/ACR at same settings.
It's not unusual for two camera bodies of even the same exact make and model to have Exposure differences of up to 1/3 EV, which is very noticeable. Ditto for White Balance differences. For Example:
Camera 1 is +1/3 EV and Camera 2 is -1/3 EV = 2/3 EV Difference
Camera 1 White Balance is -500KTemp and Camera 2 is +500K Temp = 1000K Difference
Tack on minor differences between the LR Camera Profiles and it will get much worse if heading in opposite directions, as above.
The only way to compare the raw NEF files from two cameras is to use a RAW converter that applies NO profiles, NO Gamma Correction, or any other modifications to the raw pixel data. See may post here for information on 'Rawnalyze:'
http://forums.adobe.com/message/3952812#3952812
You can download it here:
http://dave-anderson-photo.com/files/software/Rawnalyze/Rawnalyze_2.10.4.0.zip
Online manual here:
http://www.oitregor.com/numeric/Rawnalyze/Rawnalyse_doc/datas/RawnalyzeGuide.htm
None of the external links in the manual work, but nothing to worry about. If you have any questions on how to use it let me know.
I believe the Nikon D700, D3, and D3s cameras are supported in Rawnalyze 2.10.4.0. If not you can convert the NEF to DNG.

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