Alright, there is NO WAY I can respond to everything in your post, but I will respond to a few things:
You seem stuck on the fact that Peter’s letters are not put first in the Bible. I’m not. I guess it is just a difference of opinion. I DON’T think the Church would put the first Pope’s letters first, any more than they would put the original Apostle’s letters in over ones who were only called later.
Also, the Biblical evidence for Peter being the head of the Apostles is extreme, and not only that, no Christians–except heretics–ever denounced the See of Rome–EVER–until Orthodoxy came along and there was the big huge schism. If the Pope was not the head of the Church, why was there not an outcry against Pope’s usurping power EARLIER in history? There should have been.