As we all know, Neddard Stark was an honorable man who kept his promises. From the historian GRRM, we learn that Neddard was repeatedly reminded of 1 promise in particular, the one he made to Lyanna at her deathbed. When he thinks of the promise, his thoughts drift to Lyanna, but also Rhaegar and Jon.
Another piece of evidence is the Tower of Joy. Why would the greatest 3 kingsguard be guarding a prisoner, rather than
a) with Rhaegar as he fought the Battle of the Trident,
b) Viserys, the Queen, and her unborn child
c)With Aerys before the Kingslayer spits murdered him
When the Usurper's dog finally slayed the noble warriors, he found Lyanna in a bed of her blood. Could she have ied in child birth?
In Daenerys Targaryen's vision in the House of the Undying she sees a blue flower, Lyanna's favorite, growing out of a wall of ice. Jon is at the wall of ice.
I'm on my phone right now, so I don't have a copy of A Dream of Spring right in front of me. If I recall, the direct answer is there and I will consult it after I develop a used roll of 35mm film I found inside a condom wedged behind a public toilet.
Well for one it is never fully documented whether she was kidnapped or not.
When Eddard stark fought at the ironically named "Tower of love" to rescue lyanna the text's only note that she was found in a bed of blood and the room smelt of roses. It is also worth noting that her last words to Eddard where, "Promise me ned". Now she would want ned to never tell anyone the child was of Targaryen blood because it would be killed instantly if not by the Lannister's than some BArratian supporter
The only other person who could confirm that Lyanna had given birth in that room was Howland Reed, but he has yet to talk on the subject.
The second point, which in all accounts does confirm it is Eddard would never break his sacred wedding vows. Eddard has been described as the most honorable man in the seven kingdoms. Eddard, when he found that Jamie "The King Slayer" Lannister had killed Aerys "The Mad" Targaryen, was disgusted and left, he could of taken the seven kingdoms for himself but his honor got in the way.
hi! we've had some complaints about spoilers today, so on the off-chance that this post title contains an actual spoiler (or confusing red herring - I have no idea, I haven't got that far myself), this post has been removed. Do consider re-posting under a less spoilerific title. Thanks!