Re:
The Matrix, I remember the CGI being state-of-the-art for the time (which shows how badly some modern CGI-fests are going to fare), and 'bullet-time' was an innovation, not to mention expensive. Now they're even using it in adverts.
As for any philosophy or whatever, I read a thing a few weeks ago positing that it was basically an allegory for the Wachowski's transsexuality and the struggle to be themselves/for acceptance (apparently the oestrogen pills were red back then and blue was something else). Which I suppose makes as much sense as anything else. All I know is it gave the world Carrie-Ann Moss running around in PVC and that'll do for me.