well first of all you will want to know how to make a mod for modswapper (i cant remember right now but im sure that if you do a search on it then it will show up) after that its simply a question of deleting the civs and wonders from the corresponding .txt files ( hint: wonders are in wonders.txt ).
i know that im assuming that your are not all lost when it comes to the game files of ctp2 so if you are then say so and ill be happy to give detailed info
klaus