I've recently bought a book on using cPanel to do webhosting (yes, there is such a thing). I've spent a few days now going through all the settings cPanel sets for an install which you'll no doubt never install again. One vote for the DirectAdmin concept: logical defaults, change what you need to because if you don't know, it probably doesn't need to be changed.
When I find things I want to change in future setups, either for myself or for clients, I make dontes in the 'menu' files I use for installations.
Jeff