The latest class on reasons for the Catholic Faith covered why Protestants rejected 7 books of the Catholic Bible (and almost rejected 4 others), as well as why Protestants cannot answer the question of how they have (conscience-binding) certainty for their 66-book canon.
Learn about Luther’s (shocking) temerity in rejecting 4 books of the New Testament, Calvin’s (clever) attempt at crafting a canon criteria which wouldn’t contradict sola Scriptura, why 7 Old Testament books were rejected (when really they only needed to reject one of them), the curious case of the book of Esther retained in spite of its less-than-universal adoption by the early Church and the Jews, and much more.
The New Perspective on Paul with N.T. Wright even came up!
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FWIW, both Catholics and the Orthodox agree on the canonical books of the bible. At least according to a Russian Orthodox friend, the extra books in the Orthodox bible (http://en.wikipedia.org/wiki/Books_of_the_Bible) are not considered canonical by them.
God bless.