I am grateful for your opinion, thanks.
Sure one screen from our WIKI about about moving modules inside template configuration is from NEW framework which is only available for J3.x not J2.5 - probably that's why. And some others screenshots are also from J3.x version.... but its because soon only J3.x will be more popular.
About PHP, That's funny because personally I'm not a php developer so I suggest to edit php code only where is not another way.