Odd behavior loading emacs on ubuntu, there seems to be some initialization that goes on that is not in the .emacs nor in any of the files emacs reports loading through \"emacs
I've found this official document that introduces the emacs init steps: http://www.gnu.org/software/emacs/manual/html_node/emacs/Init-File.html
When Emacs is started, it normally tries to load a Lisp program from an initialization file, or init file for short. This file, if it exists, specifies how to initialize Emacs for you. Emacs looks for your init file using the filenames ~/.emacs, ~/.emacs.el, or ~/.emacs.d/init.el; you can choose to use any one of these three names (see Find Init). Here, ~/ stands for your home directory.