But I do understand hierarchical filesystems, so why would I want to do things the same way as people that don't? I don't use notepad.exe just because vim is too confusing for most people, either.
I installed iTunes once and it took me a couple of confused minutes to figure out that I couldn't play a file in it. First you have to teach the app about all of the music that I might someday want to play, then you can finally choose one of those and play it. But I know where my music files are on the disk and I just want to play them. To use Gruber's analogy, I wanted to type 'print "Hello World"' and it wanted me to start defining includes.
In the same way, I store my information in text files on the disk. They're arranged in a way that makes sense to me. They're searchable, portable, and small. And it works great for me.