Texel Origin Alignment is the nvidia equivalent of ATI's Alternate Pixel Center.
Now that i think about it though, that only helps with AA, the "Black boxes" problem occurs with or without AA...
so 8-bit palleted textures might just be the problem.
On my Geforce 3 Ti200 before i upgraded to the 6600:
now that i have the 6600 theres absolutely nothing i can do to fix the black squares.
BOTH cards were using nvidia 91.31 forceware which kind of implies its a hardware issue with new cards, though drivers and new cards together could be to blame.
drivers and old card works fine.