I'd argue that atheism should be treated as a religon (protected under law, but with the same restrictions as a religon, with a tendency towards inaction if possible).
Agree, but legally only. Atheism in itself is non-religious. You can't have a religion without belief.
Everything is so perfect, there's a reason for everything and there are so many "coincidences", how's that? How did everything start?
Nothing is perfect. Why do innocent people suffer to warlords? Why do Humans have an appendix? If we were created in "His" image, why are we all different? Why are we all not perfect?
Nobody knows the answer to how everything started. Many believe that there was one spark that started it all ("The big bang", God's creation) but I ask you... why did there have to be? The big bang could so arguably be explained by two celestial super bodies slamming into each other. There's no proof or evidence that it all started as a tiny dot that exploded one day. If there were a god as most religions describe it, the world would be a fair place. God would be able to see all and hear all, "free will" would be impossible to omnipotence unless such omnipotent being wasn't truly all powerful.