Thanks for the responses so far, I agree the choice of packages might be subjective but I feel at least Package Control and STFP should come pre-installed. Let's face it most of us use Package Control to install new packages and a lot use FTP to upload files to their server. I agree that maybe some of those other packages for some might be classed as "bloat" so perhaps have some different "flavours" for download like:
Sublime Text 2 (Web Edition) where you have basics such as HTML5 and CSS3 support, Prefixr and LiveReload packages that are useful to basic web developers.
Sublime Text 2 (Home Edition) where only package control and stfp are installed by default.
Sublime Text 2 (Full Edition) where you have a lot of packages installed.
Something like that.... just an idea.
Thanks for the information on backing your preferences up, I'll take a look at it.