Having used Windows as a child and Linux for many years since, I'm sure a large part is "you get used to whatever you use". However, any time I borrow a friend's Apple laptop to demonstrate something, I always waste a few cycles thinking about just how I should really be dealing with the keyboard, and never really settle on an answer.
At its core, I love the idea of the ⌘ key: Something for shortcuts in GUI applications so that Ctrl can remain for sending Unix Signals. But it's position, combined with the lack of discrete Home, End, PgUp, or PgDn, is a majority of what keeps me from buying a Macintosh laptop. Also the whole function key deal. The keyboard is such an important source of my productivity.