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What she tells Scout about Boo Radley in this chapter is that she believes Boo is still alive. She says that he never comes out of the house simply because he does not want to. This is totally out of sync with what Scout believes.
Scout believes that Boo must be dead. Maybe the Radleys have killed him and stuffed him up a chimney. Scout can't believe that he would stay inside all the time just because he wants to.
What is going on here is the Maudie is teaching Scout not to judge people for being different.