*hyperventilates*
On page 424 of Game of Thrones, Eddard is dreaming while under the influence of the milk of the poppy for his injured leg. During this time, he has a dream about his fight with the Kingsguard at the Tower of Joy. GRRM has stated that this dream is not completely literal (Ned was dreaming, after all) but some basic facts can be gleaned from it.
One is that three men of the Kingsguard, Ser Arthur Dayne, Ser Gerold Hightower, and Ser Oswell Whent, were present at the Tower of Joy. This is curious since, as far as the reader knows, there is no royal blood present at the Tower of Joy—just Lyanna. Then why are they there, instead of with Viserys or Daenerys? (Rhaegar and Aerys are dead by this time.)
The obvious reason is, of course, that Lyanna is carrying Rhaegar’s baby, and the Kingsguard are there to protect that portion of the royal blood. But would Rhaegar trust these men with such a secret? Probably. Barristan told Dany that Rhaegar’s oldest and truest friend was Arthur Dayne (SoS, pg. 90), so he was probably just the man to trust with such a secret.
The Kingsguard evidentally had an effect on Eddard. On GoT, pg. 502, just the sight of three men in white cloaks sends a chill through him.
Then there comes the curious matter of Lyanna’s death. From Eddard’s thoughts on GoT, pg. 43, we learn that she died of a fever, in a room that smelled of ‘blood and roses.’ Since the fighting took place outside the tower,. we can theorize that the blood came from Lyanna’s childbirth. We know the blood came from Lyanna, because on GoT, pg. 424, Eddard remembers ‘Lyanna in her bed of blood.’ Her bed of blood—the blood came from her, and blood is not usually the effect of a fever. And GRRM has been known to liken this term to birthing—on GoT, pg. 674, Mirri Maz Duur says she knows the secrets of the ‘bloody bed,’ meaning birthing.
I was with her when she died,” Ned reminded the king. “She wanted to come home, to rest beside Brandon and Father.” He could still hear her at times. Promise me, she had cried, in a room that smelled of blood and roses. Promise me, Ned. The fever had taken her strength and her voice had been faint as a whisper, but when he gave his word, the fear had gone out of his sister’s eyes.
—-GoT, pg. 43
From the quote above, Eddard implies that his promise to Lyanna was to bury her at Winterfell. However, he recalls the quote throughout the book at the strangest times and places, suggesting that the promise meant something more. From above, the simple phrase ‘the fear had gone out of his sister’s eyes’ suggests that the promise is something deeper—why should she be so scared about where she is buried? It has been suggested that what Eddard was really promising was to keep Jon’s identity a secret, and this can be supported by the manner in which he recalls Lyanna’s words.
Most of the above quotes had to do with pointing evidence at Lyanna or Rhaegar. However, a sizeable number of quotes do suggest that Jon is mroe than just a normal bastard boy. For one, Eddard never seems to refer to Jon as his son, which is interesting.
“Never ask me about Jon,” he said, cold as ice. “He is my blood, and that is all you need to know.”
—GoT, pg. 65
*faints*