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No real doubts. He was very careful to anticipate all the possible objections people would have and solved them in advance. He was pretty secure in his ideas by the time he was done but it took many years for it to reach it's final form.

Apparently Darwin was aware of many gaps in the fossil record (missing links) but wrongly assumed they would be filled as many more fossils were discovered so he went on to publish his theory. He thus did not actually 'solve anything in advance'. He actually knew their was a specific lack of evidence in the fossil record in his day but went ahead and published anyway. However, the millions of transitional forms that would exist if Darwin was right have still not been found. Thus he had no real doubts it seems but he certainly made a wrong assumption regarding the 'missing links', probably because he was certain his theory was correct. Actually, the 'missing links' are still missing and Darwin's assumption was not correct. The evidence is largely missing in terms of what one would expect in the fossil record were his theory correct.

Concerning his work Darwin himself had this to say: "You will be greatly disappointed (by the forthcoming book); it will be grievously too hypothetical. It will very likely be of no other service than collocating some facts; though I myself think I see my way approximately on the origin of the species. But, alas, how frequent, how almost universal it is in an author to persuade himself of the truth of his own dogmas."

Charles Darwin, 1858 in a letter to a colleague regarding the concluding chapters of his Origin of Species. As quoted in 'John Lofton's Journal', The Washington Times, 8 February 1984. "For I am well aware that scarcely a single point is discussed in this volume on which facts cannot be adduced, often apparently leading to conclusions directly opposite to those at which I have arrived. A fair result can be obtained only by fully stating and balancing the facts and arguments on both sides of each question; and this is here impossible.' Charles Darwin, 1859, Introduction to Origin of Species, p.2 ibid.

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