As the Uchiha coup d'etat was about to take place Danzo attempted to pluck Shisui's eyes and use it for his own power grab but ended up failing miserably to do so. As shisui saw his move and immediately used shunshin to get out but ended up being poisoned by an Aburame bug. He then got to the meet up point with Itachi weaken by the poison he pluck both of his own eyes and hand it over to Itachi asking him to use it for the greater good or keep it with sandaime sama for safety. sometime later Itachi ask the sandaime to keep the eyes of his friend and give it to someone who is really in need.
A year after the Uchiha clan massacre Naruto was beaten by a mob not only that they took his beautiful cerulean blue eyes which force the hokage to act on behalf of the blonde and gave him the eyes that Itachi entrusted to him.
What will happen when the kyubi get's involved and modifies Naruto genes and in doing so accidentally allowed Naruto to have magnet release.
Naruto is not mine sad to say.
it belongs to Masashi Kishimoto