Lot's of things that took effort and at least enough patience and passion for others to try to have a conversation.
First of all, thanks for the article you posted previously. I'd say overall all it's just stating common sense. I won't nit-pick it though because it seems to be an honest effort on your part to seek common ground. And there's some common ground.
I feel I should say some things positives about religion. I like the fellowship that occurs in religion when it's about being festive and social. The Catholic Church near me is Croatian. They have awesome parties! It was kind of neat helping a Priest (yes, all black, white collar thingy) carry kegs onto the church grounds. I love it when the Priest rewards me by doing a couple shots of slivovitz with me. They have a live band playing traditional crow music. (I hope crow isn't an epithet for Croatian). I like it when people come together and have a good time. I wish Atheists could gather for fellowship and fun. I wish we could get together and do more positive things for the community as a group. But if we did, we wouldn't get tax exempt status so a lot of our fund raising would go to taxes. I guess we could set up a 501-C3 or something...
One issue is compartmentalization. You have acquired, knowingly or unknowingly, a psychological trick. The trick is that you can drop all the reason that you apply in everything else when it comes to religion. You see Criss Angel and you know he's not performing miracles. You see a plane in the sky and you know it's not flying because of pixie dust. But you read there's a magic entity that created everything including people which he uses in a proxy war against another one of his creations (satan), and somehow all your understanding of logic and reason gets tossed to the wayside. Then, I see a lot of religious folks trying to reverse engineer the logical side of their nature in order for it to better coexist with their faith.
"Believe or suffer for an eternity". Hey, Ghandi wasn't Christian either so I guess I'll have good company.
"God (as Jesus) died for you sins". No one asked him to for one. Two, he made us as sinners. Not only because of free will, but he created a Universe where free will has damnable consequences. Why was that necessary?
"Religion is truth". If it's so true why does it have to reinterpret itself when it ceases to align culturally with the society it's trying to prosper from? Basically, Religion is steadfast in it's views until those views start to cost the church warm bodies.
Anyone here ever read "The Apocrypha"? Kind of interesting that a book "inspired" by God had so many hidden/rejected texts.