Reiner did die in the manga. His death was a result of a series of events and conflicts that had been building up throughout the storyline. It had a major impact on the plot and the other characters.
Perhaps in the fanfic's storyline, Tony is facing a lot of pressure himself, like threats from powerful villains or issues within the Avengers. Peter's actions, whether they are mistakes or just inconvenient timing, could be the straw that breaks the camel's back for Tony, causing him to yell at Peter.
Yes, there might be. The Naruto and Attack on Titan fandoms are both huge, and fans often like to cross over their favorite characters in fanfiction. So it's quite possible to find Eren - from Attack on Titan - in Naruto fanfiction. However, it may not be as common as fanfictions within each respective universe.
Love and sacrifice are common themes. Often, Reiner has to sacrifice something for the sake of love in these fanfictions. It could be his position in the Legends world or his own safety.
One possible plot could be that Percy has finally had enough of the gods' interference in his life and the lives of his friends. He might yell at them for their unfair treatment, like how they often use demigods as pawns in their games. Maybe he'll demand more respect for the sacrifices demigods make.