As for the miracles, learning about how modern cults spread was very eye-opening. You can watch baby religions get born, and you can see the elements of human psychology that cause people to believe in miracles and to believe other people who believe in miracles. It's not just "oh, you can debunk some miracles" - it's that you can see precisely how miracles get born and their stories spread. If it happens this way now, it probably happened that way then. I found this to be empirical evidence against miracles. An argument in favor of miracles must not only establish a probabilistic argument about the universe, but it must also establish that observable tendencies of humans did not occur on this occasion.

Yep. I tried to articulate a similar point in an open thread not long ago. This became the lynchpin of my non-belief. It became unnecessary to debunk each individual claim, rather I came to better understand the psychology behind why people tend to believe in such claims, and religion writ large.

Joseph Campbell, Ernest Becker, Michael Shermer (and a bunch of the "New Atheist" gang) have all been helpful to me.

I now believe that pinpointing a gut-level bias, an irrational belief that conjures up truly plausible reasoning, and targeting that gut feeling instead of the reasoning, is an extraordinarily difficult and valuable skill. I have done it twice now (once with religion). I think few people have done this, rationalist or otherwise. I think you may need to do this. Focus on your emotional fears rather than the complex intellectual doubts, and with a bit of time you may find things look different.

I'm curious what other belief, besides religion, you targeted?

This is well stated, by the way. I've found it hard to articulate around here (and other places). Indoctrination seems to plant a seed that is (almost) immune to purely rational debunking. As long as God, hell, etc. are non-zero probabilities, there is a deep emotional, fear-filled urge to cling to the "what if?" of one's childhood religious upbringing.

You have to find a way to examine the indoctrination itself, not it's manifestations...since there will always be theological gymnastics ready to thwart rational and logical arguments. God is mysterious. God requires faith. God knows your thoughts and motives. You need to look into the "why" God must exhibit these characteristics in order that the religion meme survives. A sufficiently evolved God meme will always survive rational attack—those gods who didn't are no longer feared or worshiped.