RIJIR will have to give you an official answer, but considering the source material available - a large quantity of which still only exists as 4:3 letterboxed footage prepared for laserdisc - an HD version of the redux edit doesn't seem very worthwhile. I think meedermow wrung about as much quality out of this project as was possible when he upscaled it to 16:9 for the appendix release (RIJIR had edited in 4:3 originally).
As for the other appendices, it's pretty much the same story - most of the source material was DVD quality at best (much of it significantly below, and I mean that affectionately). BD might afford a better storage solution, but if you'd like them re-built as larger archives I'm afraid you'll have to make your own menus ;)
(BTW it's possible there's a lot of current interview material and such doing the rounds for Prometheus, and that would likely be in HD. I'm of the feeling that anything worthwhile - the online viral clips and such - will be on the official release, but I daresay TB1971 is collating all of this stuff just in case!)