I have installed the mark 4 FW to my old model Touch, in order to have 2.6.1b.
I can see no difference in the header. However, I did not measure it. Therefore, comparing mark 3 and 4 might not be the most effective way to find something in this respect.
Another point: The header and footer are certainly handled by libnickel for epub and kepub. All changes I have done, e.g. the font size of the reading progress indication, are effective in both formats.
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