Linux Journal answers the question: What’s your presidential candidate for 2004 running for a web server?, in a recent article.
Apache does currently hold 64% [netcraft] of the web server market, so it should be of no surprise that most of the candidates are running it to serve their web sites. And seeing as there is only one Republican candidate it’s not really a very fair sample space. Also I suspect that the respective up times are directly related to the choice of web server, and not political affiliation. 
But it is still way more fun to think that Microsoft and the Republicans are part of some sort of evil conspiracy.