> NVidia is probably not targeting top500, so is focusing on the 99% of market.
Nvidia definitely targets the Top 500 and is currently (Nov 2013) providing the GPUs for #2 and #6 in the Top 10 of the list and dozens more lower down the list. There's a lot of money in supercomputers, in the Top 500 scale and smaller installations too.
NVIDIA is focusing on the movie industry, where SGI workstations and rendering servers have largely been replaced by Linux boxen with NVIDIA graphics kit inside. That's probably been the biggest driver of NVIDIA's Linux support not completely sucking these past few years.