You kind of alluded to it in your introduction. I mean, for the last 300 or so years, the exact sciences have been dominated by what is really a good idea, which is the idea that one can describe the natural world using mathematical equations.
Well, the first thing to say is that we've worked hard to maintain compatibility, so that any program written with an earlier version of Mathematica can run without change in 3.0, and any notebook can be converted.
The thing that got me started on the science that I've been building now for about 20 years or so was the question of okay, if mathematical equations can't make progress in understanding complex phenomena in the natural world, how might we make progress?