I haven't gotten a chance to play ST yet, so bear with me - but I do know the plot and have seen clips (had to go to YouTube to see Zelda flips out on Link over the use of her body clip XD).
Could it be that maybe Link is just special? In other LoZ games, Link seems to be really attuned to things most are not - use of magic, use of certain weapons, particularly fine-tuned skills (at least the way other characters talk about his skills, your own skills as a player aside. I honestly don't think Midna should have called me a "fine wrangler" the first time I tamed Epona in TP, because it took me 50 some odd times of falling off before I could do it!). Link also has stuff like "no fear of the dead" (OoT and MM), the ability to commune with an ancestor (TP), the favor and ability to see light spirits (TP), the favor of these... let's face it... *frightening* Great Fairies (OoT, MM), Elemental Spirits (Oracles), and etc.
Throughout the games, he has an ability to see ghosts and guardian spirits and whatnot, so maybe any given Chosen Hero is just, by the will of the Goddesses or whatever, to be naturally attuned to that which most people in Hyrule/Termina/New Hyrule/Wherever just don't see.