Computer files are easy to backup. The best system is to keep the physical media as backup for digital files. After all, the more you use analog media, the more it degrades.
As for my 5.2 $5k system, it would probably look a lot like the one described in the article. I might swing for monopole surrounds as opposed to those bipoles. My ideal source would always be PC. I would probably go for a less expensive Hsu or Ascend/Rythmik speaker/sub system, and bring the source up to a $1k PC. But I think the system listed in the article is a very intelligently thought out and high value setup.