As for the HDMI spec, I would guess that very few consumer and even prosumer/pro cameras support native 4:4:4 output internally in their processing chain.
This is neither here nor there. The D4 is a horrible choice for casual amateur videography. Nikon is playing catchup to Canon for the Hollywood community, and the D4 spec sheet makes Nikon's interest in this market very clear.
The poor video quality resulting from the mid-range (or worse) h.264 video profiles currently used in dSLRs has been a thorn in the side of videographers. Video storage and editing gear is clearly capable of storing and editing video at the 4:4:4 level, and video cameras designed to replace film cameras. For example, the 'ancient' RED ONE provides RAW output from a 5120x2700 pixel array sensor (enough pixels to generate 1080P 4:4:4, I believe).
The proof will be in the pudding, but it should be plain to everyone reading this thread that HDMI is no barrier to 4:4:4 video. And sensor Bayer pattern pixels have no bearing on the matter, as the sensor output data (Bayer pattern and all) has many times the resolution needed to provide 4:4:4 1920x1080 video without 'upsampling'.
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