I have a Scripts folder, that includes all the .js files used in the project. Using the Ajax Minifier task, I generate .min.js files for each one. Depending on whether the a
This article about "Automatically Minify, Combine, Compress, and Cache *.js and *.css Files in your ASP.NET Project" can maybe help you
http://www.codeproject.com/KB/aspnet/CssAndJavaScriptOptimizer.aspx?display=Print