[sheraz]

I've been using PHP Minify [1], a simple script to concatenate, minify, and send out my backbonejs project.

Works well.

[1] - https://github.com/mrclay/minify

[eta_carinae]

That doesn't address my point, which was about includes at runtime of .js files.

The reason why you see big .js files is that it's not easy to split your code in a.js and have it include b.js from the server.