I'm not intimate with the details, but I would hope most boot loaders
by now use LBA values to find the boot code, not CHS.
If so the issue becomes the partitioning tools (fdisk etc.) putting
the partitions at the right place. Can't those tools bypass the bios
somehow and ask the drive itself what it's geometry is?
From what I understand Vista has already made the jump and is now
ignoring CHS and instead just putting the first partition at 1 MiB
into the drive. (sector 2048 with 512 byte sectors.)
Sounds like fdisk and friends should be updated to do the same.
A bigger issue in my mind is lots of clones, images, etc. are probably
LBA based today and simply start the first partition at sector 63.
Thus the hardware vendors will need to have drives that perform well
with partitions that start at sector 63. The existing scheme
described may be as good as it gets for that need.
Also, how are SDD manufacturers handling this. Their erase blocks
don't align with partitions that start at sector 63 either I assume?