A plot could be that they are being hunted by a powerful and evil ninja organization. So they run away to gather strength and allies. Naruto might try to convince some of his old friends from other villages to join their cause. Sakura would be constantly worried about their safety but also determined to fight back.
Well, they could embark on a journey to discover a hidden ninja village that holds the key to a powerful jutsu. Along the way, they might face various challenges like traps set by rival ninja clans. And Naruto would probably be the one to keep everyone's spirits up with his positive attitude.
For Naruto, running away might make him more determined to prove his worth and protect his friends. He could learn to control his Nine - Tails chakra better in the face of danger outside the village. Sasuke may start to trust Naruto and Sakura more, realizing that they are his true comrades. Sakura, on the other hand, could become more independent and confident in her abilities, not just relying on Sasuke and Naruto but also being able to take charge when needed.
One possible plot could be that they run away from the Hidden Leaf Village to avoid a powerful enemy that is targeting them specifically. Maybe this enemy has some vendetta against them because of their unique abilities or past actions. They might have to rely on each other's skills and their friendship to survive in the wild and find a new place to call home.
A simple reason could be to escape a dangerous prophecy. Maybe there's a prediction that they will cause great harm to the village if they stay, so they run away to figure out how to change their fates.
They might run away to avoid a conflict that their villages are about to be dragged into. Naruto and Sasuke, being the powerful ninjas they are, don't want to be used as tools in a war, so they decide to run away.
Their relationship could develop into a deeper friendship. Away from the daily hustle and bustle of the village, they would rely more on each other. Naruto would see Sakura in a new light, not just as a teammate but as a true partner. And Sakura would appreciate Naruto's unwavering loyalty more than ever.
A common plot could be Naruto achieving great things on his own while Sakura is just a hindrance. For example, Naruto might be shown saving the village single - handedly while Sakura makes mistakes that almost cost everyone. As for Sasuke, he could be written as being in Naruto's shadow all the time, not really having his own independent growth. Another plot could be Naruto always being the moral compass, while Sakura and Sasuke are often in the wrong morally.
A great plot would be if they all time - travel back to their childhood days. Sasuke could use his knowledge of the future to prevent certain tragedies, Naruto would try to befriend everyone even earlier, and Sakura could focus on improving her skills from a younger age. This would also change their relationships in interesting ways. Also, a plot where they all get stranded on an unknown island and have to survive together while also dealing with their personal issues could be really interesting.
A common plot in such fanfiction is Sasuke and Sakura's relationship being tested. For example, rumors start spreading in the village about Sasuke's loyalty again. Sakura has to defend him while also dealing with her own doubts. Or perhaps there's a plot where a powerful ninja from another village falls in love with Sakura. Sasuke then has to show his love for Sakura in a more obvious way to keep her by his side. This can lead to some really interesting character development and relationship - building moments.
One interesting plot could be a story where Sasuke and Sakura have a child, and Naruto and Kakashi become like uncles to the child. They all live in the same village and face new threats together, with the new generation learning from the old. For example, the child might inherit Sasuke's sharingan and Sakura's medical skills, and Naruto and Kakashi help train the child to be a great ninja.