Well do not know if you have ever heard of or read this one but "A Monster by any other name" is a long awesome story. This is the summary they give. "The same old Sam/Dean love story, with a darkfic twist. Sam grows up in a concentration camp for monsters, and Dean is raised as an only child and a hunter. Together, they make each other human."
They are still adding to this story and I am anxiously awaiting the rest. I also like the alpha fics but they are really hard to find. Another type you might find interesting are one about Sentinel and Guides those are good as well.
:-)