As a religious person myself, I have to say that's the one part of the Sequences that seems to me to be poorly fitted. (I haven't read them all, but in the ones I have read). Its inclusion seems to follow one of two patterns.

The first pattern is, "all religion is false and I do not have to explain why because it is obvious". These I ignore, as they give me no information to work from. (Your use of the phrase "religious delusions" I also class under this category).

The second pattern is, "I have known religious people who have fallen into this fallacy, this trap, this way of reasoning poorly, and have used it to support their claims". Again, this tells me nothing about whether or not God exists; it merely tells me that some people's arguments in favour of God's existence are flawed. It means nothing. I can give you a flawed argument for the proposition that 16/64 is equal to 1/4; the fact that my argument is flawed does not make 16/64 == 1/4 false.

...so, as far as I've so far seen, that's pretty much where things stand. The Sequences praise the virtues of clear thought, of looking at evidence before coming to a conclusion, of not writing the line at the bottom of the page until after you have written the argument on the page... and then, in this one matter, insist on giving the line at the bottom of the page and not the argument? It just gives the feeling of being tacked on, an atheist meme somehow caught up where it doesn't, strictly speaking, belong.

...maybe there's something in the parts I haven't yet read that explains this discreprency. I doubt it, because if there was I imagine it would be linked to a lot more often, but it is still possible.