It wasn't only the scenes when one of them was hurting; scenes when they were being a not-perfect but happy family also tugged at my heartstrings quite effectively. I probably would be able to be more specific if I had commented right after reading, but I needed some time to think about different things - like, how much I loved Dean saying "no!" to magical-angel-instant-healing, how Sam will fit into the family, what kind of adventures still await them... etc.
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Sorry for the rambling! /blush