Arya and her half brother Jon fall in love, and "their passion will continue to torment Jon and Arya throughout the trilogy," which is a serious deviation in that the thought of people actually hesitating to commit incest in Westeros is shocking. To further complicate matters, Tyrion falls for Ayra as well. We're going to guess/hope that their ages were originally different.
In another abandoned plot point Tyrion besieges and burns Winterfell to the ground, which probably would have complicated his attempts to mack on Arya. Sansa bears turbo-villain Joffrey a son and sides with the two of them in the war, only to somehow "bitterly rue" the decision to abandon her loving family for evil incarnate. Meanwhile, Daenerys was going to murder her beau Khal Drogo to avenge her douchey brother, and Jamie was going to murder his dad and blame it all on Tyrion, because somehow Martin's original vision had families that were even more dysfunctional.
Although Uncle Walder is great at weddings.
All of this actually gives an interesting insight into the mind of an author; while fans think of every single word as sacred canon, to the writer these characters, plots, and scenes are like Legos that can be combined in any number of ways, depending on how said author is feeling that day. "I find that if I know exactly where a book is going, I lose all interest in writing it," said Martin. That right there is a statement that has since proven itself true several times over.
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