Unfortunately religious guilt often gets replaced by secular neo-Malthusian doomsday ideology. That might not be your experience but it seems to be common. It plugs into the same port: "forgive us nature for we have sinned... we have overshot our ecological carrying capacity..."
Another thing about secularism that bothers me (and I am not religious) is the strong negative association with birth rates. Look up the statistics. The more rational your worldview is the less you reproduce, to the point that most very secular nations are in demographic decline. Difficult investments in the future such as child rearing seem to be replaced by an evolutionary dead end Epicurean lifestyle.
I'm not arguing that everyone should join the Quiverfull movement, but it bothers me that fertility is inversely correlated to a rational worldview. Darwin is clearly on the side of fanaticism and superstition, in that if there is any genetic basis to these traits we are strongly selecting for them. Even if there is no genetic basis, beliefs propagate most strongly from parent to child so we are certainly culturally selecting for fanatical religious ideologies in the long term. A higher proportion of tomorrow's children will be the product of today's fundamentalists. I suspect this is why severe religious ideologies are historically so powerful. Those that didn't hold them left fewer descendants.
I see a connection there -- between deep pessimism and lack of fertility -- that points to some kind of psychological vacuum related to motivation and hope. Seems like when you take away myth, you take away teleological action. Actions belong to the realm of narrative -- storytelling -- not fact. This is as true in the secular realm as in the religious -- progress is a myth, not a fact. In the extreme it takes on a quasi-religious tone in the form of "the Singularity" and similar ideas. Even companies have myths, and startup founders often have to put on at least a little bit of a guru hat.
You also seem to take away the idea that one can stand up against overpowering adversity. It's certainly true that humanity faces difficult challenges, but those who have secular worldviews seem to easily default to hopelessness the minute their logical analysis turns up a probability of success that seems less than 50/50. Perhaps there's something adaptive about the craziness of faith... it causes us to actually try in the face of seemingly insurmountable adversity.