A/N: Hello everyone!! Well I'm new to the fan fiction scene and I am a huge fan of Naruto. This idea just popped into my head and I knew that I had to write it out. So here are a few warnings…

This story will be yaoi. If you don't like than don't read. No one is forcing you to and you have been warned.

This story will more than likely have spoilers seeing as I am mostly basing this fanfic around the Manga. This story takes place after the 420-430 chapters of the manga. This is after Pein attacks Konoha and Naruto coming to the rescue. So he has his Sage Mode.

The characters will be as IC as plot possible. Sometimes the characters will need to be OOC for the plot and I will more than likely be taking some of these characters out of the norm of what they would normally be doing.

I have no idea what jutsu Naruto is secretly creating so I am making it up. Plus I will be making new jutsu for Naruto and Sasuke as the story goes on.

Lastly there will be a few OC's but they are filler people who don't really have much to do with the story other than I need someone to do something with the main characters.

Blanket Disclaimer: I don't own Naruto or any of the characters, places, or jutsu. I do however own this plot, any OC's I create, and any jutsu that I make up.

Naruto: Sage Chronicles

Prologue

The dust kicked up and blew in the manufactured wind of the blonde haired teen's attack. Anger ran deep through his veins at seeing his beloved village almost completely destroyed. He was late. He had not made it in time to help protect the people that he cared about nor was he in time to protect the village that he one day wished to oversee.

The strange mechanical puppet shattered under his fist as his golden eyes flicked across the crater and stared that the ones that were the core of his anger. This puppet had tried to attack Baa-chan. It had attempted to kill the Godaime.

"I'm the one you want…right."

"Nar..Naruto?"

"You should go and have some tea or something. I'll handle this."

Black cloaks with red clouds flapped in the wind as Naruto stood up and gave the invaders his complete attention. They would sorely wish that they had never attacked Konoha. They will wish that they never set foot before him.

"Kyuubi."

A smirk appeared on the blonde's face. "My name is Uzumaki Naruto." He stood to his full height as he crossed his arms over his chest.

"Pein."

A blonde eyebrow rose ever so slightly as one of the many in front of him spoke. Each one eyed him as they slowly fanned out. Naruto could feel their chakra growing but strangely the chakra was swirling through only a few puppets at a time. A fox like grin spread across his face as the two puppets that he noticed with chakra attacked.

Naruto ignored Tsunade's warning yell. He ignored all the sounds that were around him. He only had eyes and ears for the ones in front of him. He would not be torn down by these things. He would not lose. Pein would die for what he had done.

"Naruto!"

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"Naruto-sama?!"

Azure eyes opened as a lithe body shot up from the bed in the small apartment. Said eyes blinked rapidly as the teen tried to figure out why they had been awakened in the first place. His eyes glanced around his apartment as he got his barring. Table with chairs sat in his dining room. Dishes littered the counters of his kitchen. Clothes danced across the floor. The door to the bathroom was slightly ajar as he was never one to close the door.

"Naruto-sama? Are you okay?"

A tanned hand ruffled through his longer blonde hair as he glanced down to his thigh. Sitting atop his leg on the blanket was a small black and green frog. Large curious eyes blinked doefully at him. The teens shimmering eyes wrinkled slightly as a grin spread across his face. "I'm fine Puku. I was just reliving an older memory."

The little frog titled its head as Naruto turned his head towards his window. The sun had yet to crest the horizon. A small smile donned his face. When I was younger I would have been so mad at the fact that I had been awakened at such an hour. It's amazing how we all change. "Puku, not that I mind, but what are you doing here?"

Naruto's gaze remained on the window as the little messenger frog leapt from his leg and landed on the window sill. "Did Naruto-sama forget that you left me with Godaime?"

Naruto's crystal eyes flicked to the frog slightly before once again looking out the window. He could just make out people walking along the streets. People that were getting ready for the day to start. "I didn't forget. Did Baa-chan want to see me?"

Puku shook her head, "No. But I was told by Godaime to check up on you."

That drew Naruto's attention. Why would the old woman want to check up on him? He was fine. "I don't think I follow. I'm fine." To prove his point Naruto grinned at the little frog.

"I think she understands that physically that you are fine. But mentally…"

"What the hell is that suppose to mean?!" Naruto clenched the blankets in his fists as he glared at Puku. He knew that he shouldn't be mad at the messenger but there was no one else in the room with him. Plus he did know what Puku was talking about. It was what everyone had been talking about for the past year.

"I didn't mean to offend you Naruto-sama…It's just with everything that has been happening over the past year since Pein attacked…and with you refusing to take the Chunin exam…" Naruto glared at the frog.

"Enough!" Naruto flinched slightly as Puku jumped back in fear. "Sorry Puku. I have my reasons. I know that everyone is wondering why but it's nothing that they need to worry about. You can return to Baa-chan and let her know that I am fine."

Naruto stared down the frog knowing that the little green and black messenger didn't believe him but Naruto knew that Puku would never disobey its 'master'.

"Of course Naruto-sama. I will return to the Godaime." With those words still lingering in the air the frog vanished in a puff of smoke. Naruto sighed softly as he leaned his head against the cool glass of the window.

A lot had happened this past year. After the attack of Pein Konoha was once again suffering. At least this time Konoha had not lost the Hokage. Naruto shuttered as images flashed through his mind. So many people had been killed and the worst part was that a lot of the people that died had died to protect him. If only he had made it sooner.

Some luck did come out of the battle however. Kakashi-sensei had been fatally wounded but as luck would have it he managed to survive. If Sakura-chan had not gotten to him when she did he would have died. Same with Choji's father. But not everyone lived.

Another sigh escaped his lips, fogging the glass in front of him. The village had been in chaos in the aftermath of the attack. Naruto, himself, was drained but at least his injuries had healed very quickly thanks to the Kyuubi's healing abilities as well as the healing abilities of his Sage mode.

Naruto turned his attention away from the outside world as his eyes fell upon his Sage scroll. He had managed to read through almost the whole scroll now and he knew the jutsu that he had read by heart but there was still so much to learn and train. At least one of the jutsu within its secret roll helped the day that Pein attacked.

Long muscled legs swung over the edge of the bed as Naruto got to his feet. With silent steps Naruto padded across the room until he stood in front of the red bound scroll. He gently placed his hand upon the scroll and smiled. If it wasn't for this scroll a lot more lives would have ended that day. I never truly understood what it meant to be a Sage. I always thought that it meant that I would get physically stronger. I never thought that within this scroll there was medical jutsu.

Naruto smiled sadly. Some of the people that had their souls removed couldn't be saved. If the people had been damaged after the soul had been removed Naruto couldn't anything to help them. But the few that were left unharmed were healed by his summoning jutsu. He was able to summon the soul of the person back to their body. Of course this took up a lot of chakra and he had to rely even more on the chakra of the Kyuubi but it was all worth it just so that he could see Shizune open her eyes and smile softly at him.

Naruto removed his hand from the scroll as he walked across his small living room and entered his bathroom. His head still full of the aftermath of the Akatsuki attack as he removed his night attire and turned on his shower. Steam rose and filled the room as he climbed under the jetting warm water. Rivulets of water ran down his form as he let the water fully awaken him.

The rebuilding of Konoha would have taken place after all the wounded had been tended to if Danzou hadn't attacked. Naruto closed his eyes as the water washed over his face. The leader of ROOT had decided to try a coupe while everyone was distracted from the first attack. By sheer luck they were able to keep ROOT at bay but Baa-chan had been weakened.

Naruto's brow creased as he rubbed his hair into a rich lather. Baa-chan had used up a lot of her chakra and she too had ended up in the hospital but at least Danzou had finally been exposed as the traitor that he was but the biggest surprise was still yet to come. Naruto sighed as he dipped his sud covered head under the water.

Naruto stared at the ceiling of his shower as the foamy bubbles slid down his body as the water washed it from his golden hair. "Sasuke…" The truth. The whole truth about the Uchiha Clan had come to light and with it Danzou's fate as well as the Elder's fate had been sealed. Uchiha Itachi hadn't been the monster that everyone had made him out to be and Tsunade-baa-chan had taken immediate action.

Naruto reached for his soap as a smile, true and genuine, played across his face. Baa-chan had released an official statement stating that Uchiha Itachi had been cleared of all charges. She also released that Uchiha Sasuke was to be given a full pardon and the Hokage gave an official apology to Sasuke. Though, Naruto frowned, Sasuke was still missing.

Naruto worried at his lower lip as he rinsed his body clean of the soap. For a long while the teen just stood under the water. So much had happened but the strangest thing was the way the villagers now treated him. Even though it had been a year he was still in shock at the way he was now treated. His blue eyes closed as he tilted his head back under the water.

Everyone in the village had finally finally recognized him. People waved, smiled, and even bowed to him. They no longer looked at him in fear or said things behind his back. People even called him Naruto-san, Naruto-sama, and in some cases Sage-sama. Though whenever he heard his he always asked them to just call him Naruto but they never listened. What really threw him for a loop and, though he would never admit it to anyone, was that girls were now lusting after him. There had been many times that he had been ambushed while training by groups of girls all trying to get his attention. If Sakura-chan hadn't been there most of the time he knew that he would have lost pieces of his clothes. Those girls are like rabid beasts. Plus it didn't help that he was sometimes even cornered by guys.

Naruto shivered slightly. Girls or guys I would like it if they didn't corner me at all! Ino had told him it was because he was sexy now. Of course after she said this she blushed, muttered something about flowers, and vanished from sight. He hadn't seen her for three whole days after the incident. Something that Sakura liked to point out whenever the two of them walked past Ino's family's flower shop.

Naruto cracked open his eyes, turned off the water, and climbed out of his shower. The room was still full of fog but that didn't stop Naruto from wiping at the mirror to look at himself. Bright shimmering blue eyes stared at him. His face had lost all the baby fat and roundness to become much more angled. His blonde hair was a lot longer now; reaching to below his shoulders. But it was still short in the front and when it was dry it still spiked out on its own. At least it did when he didn't have it pulled into a tie at the nap of his neck.

Naruto looked down as his body. He was still slightly on the skinny side but he was well muscled from his years of training. The most interesting thing about his body, he thought, was the Kyuubi's seal that now never vanished from his stomach. The black seal stood out upon his bronzed skin like a beacon. But he had long since come to accept the fact that he was the container of the Kyuubi. It was a part of him just like breathing.

Naruto smirked as he closed his eyes. Slowly he pooled, pulled and finally pushed his chakra. Warm wind filled the bathroom as it gathered and swayed around him. Without minutes Naruto was completely dry. A sudden knocking startled Naruto from his thoughts and the sound of a door opening caused him to tense slightly.

"Naruto?"

Naruto mentally shook himself as he sensed the person's chakra. "I'm in the bathroom Sakura-chan."

The sounds of footsteps coming towards the door caused Naruto to tense once again. His clothes were in the other room and since he learned to control the wind with his chakra he had stopped bringing towels into the bathroom with him.

"What's taking you so long? We have to meet Sai and Kakashi-sensei down by the bridge."

"Well…erm…" Naruto quickly locked the door. Though Sakura-chan had never walked in on him in the bathroom he didn't want to have a first time with it.

"Come on Naruto! We're going to be late!"

"Sakura-chan I..I'm…"

"Come on baka spit it out!"

Naruto flushed as he could mentally see Sakura-chan with her arms crossed and her foot tapping. "I don't have any clothes in here with me…they're out there in the room you're in."

Silence was his answer before Sakura-chan's voice once again sounded from the other side of the door. "I'll meet you in the hallway." Naruto listened as Sakura-chan's footsteps echoed throughout the small apartment before the sounds of the front door opening and closing followed.

Naruto sighed as he opened the door and started to get ready. This is strange. I don't remember having to meet with Kakashi-sensei or Sai today. I was going to go and train…weird.

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Deep dark onyx eyes looked down upon the sweeping valley that housed Konohagakure. Sapphire-onyx hair danced in the early morning wind as the teen silently watched the village. This was the closest that the teen had been to his birth village in over four years. A lot had happened. A lot had been explained and discovered.

Slowly he turned his head to stare down at his sleeping companions. He had ordered them to stay away from him while he traveled to his village but they actually refused. They had told him that they were going to follow him because the shinobi of Konoha couldn't be trusted.

He still couldn't believe that he was here. When the statement about the Uchiha Clan had reached his ears he was, for lack of a better word, shocked. He had never guessed that the Hokage would go public with the findings of ROOT or what the Elders had been hiding. But what really shocked him was the fact that the Hokage had cleared Itachi and had apologized to him, Sasuke.

But the biggest question on his mind was now what to do with this information. He had stayed away from the village even longer because he couldn't decide what he wanted to do. Sure he wanted to attack the village because of what the Elders had done but the Hokage had already taken care of that. Tsunade had not been merciful in her actions.

A smirk tugged at the raven haired teen's lips. The Hokage had stripped the Elders of all their power, influence, and locked them away. No one knew where the Elders were being kept but the Hokage had be quoted as saying that she didn't want the likes of them able to even speak within breathing space of anyone in Konoha. The same went for ROOT and all the ROOT members that had backed Danzou. They were never heard from again.

But could she have killed them? Were the locked within the shinobi prison? Did she really mean what she said about the Uchiha Clan and that she really was sorry about what had happened? Am I happy with that? Justified with that?

Sasuke gritted his teeth as he folded his arms across his chest. There was also another reason he had decided to come back. Rumors of Naruto were starting to get way out of hand. There was no way that the dobe was as powerful as the rumors said.

Destroying five out the six Pein's for one. That the blonde was a Sage. That the blonde had managed to create nature jutsu. That Naruto was rumored to have surpassed his teacher, Jiraiya. Some were even going as far as saying that Naruto had managed to even surpass the abilities of the Yondaime. But what frustrated the Uchiha the most was the fact that for the past few years he had been thinking about the blonde air head more and more.

Sasuke growled as he ran a pale hand through his hair. The boy was all he could think about lately. When he had last seen Naruto in the woods the boy had grown and, though Sasuke hated to admit it, he had turned into quite the looker. His golden hair, his sky eyes, and even his fox like grin had matured. His dreams were flooded with past memories of the two of them training, eating together, competing and all around being kids.

But now his dreams were changing. One minute he was dreaming about their twelve year selves and then the next minute he is seeing them as teens and he always wakes from those dreams sweaty, hot, and extremely bothered. What was it about the blonde kitsune that called to him? I need to see him. I need to touch him and make sure that he is real. I need to make sure that he is protected.

Creases appeared on his forehead as his eyebrows drew together. For the past month, while they traveled to Konoha, Sasuke had been plagued with dreams of a different sort. These dreams all started the same. Naruto smiling at him, holding him, kissing him and then everything would change. Naruto would be screaming in pain. Blood was everywhere and no matter where Sasuke looked he couldn't find the blonde haired boy.

"Sasuke-san?"

Sasuke mentally kicked himself for allowing the tall brute to sneak up on him. Fucking Naruto! Why can't I stop thinking about you?! "Jugo shouldn't you be sleeping?"

"The birds have woken me."

Sasuke stared blankly at the village as the giant spoke, "Hn."

"They speak of a strange being living within this village."

A single slender eyebrow rose elegantly as Sasuke's eyes flicked to the orange haired man that now stood beside him. "Really."

Though Sasuke didn't speak the single word as a question Jugo nodded as if he did. "The birds say that there is a pure being living in Konoha. He calls to all things of nature. They go to him often and sing to him."

"This matters because…"

Jugo looked down on the village as he shrugged slightly, "They speak of a golden Sage."

Sasuke's eyes widened slightly as he turned his head towards the giant. He waited for Jugo to say more but he did not. The man's eyes were clouded over slightly and Sasuke knew this to mean that the man was in his own thoughts and that he wouldn't be getting anymore information from him. Golden Sage?! Could…could the rumors actually be true?! Is the baka dobe really a Sage?!

Sasuke opened his mouth to question Jugo on what else the damn birds told him when suddenly a wave of nausea passed over him. Everything dimmed slightly as he swayed. The sounds of fighting filled his ears. Metal on metal. The clash and crash of kunai ringed in his ears. The screams of numerous people bled together to become one loud unrecognizable hum.

Sasuke closed his eyes as he pitched forward. But over all the screams, the metal clashing, the sounds of blood hitting solid surfaces there was the sound of one person. It was a male's voice. It was contorted in pain. It pleaded, it called, and it wished in every fiber of its being for the person that the voice called for. The voice called one thing and one thing only. It yelled his name.

"Sasuke-san?!"

Onyx eyes fluttered slightly as he pushed himself away from the arm that held him up right. These damn visions! Are they a side effect of my new eyes?! Will I be cursed to forever hear the calls of that fucking dobe?!

"Sasuke-san, are you alright?"

"It's nothing." I need to find Naruto…if for nothing else…to make sure that he is still alive.

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A/N: TBC? Please review and let me know. Thank you for reading!! =bows=

P.S. For those of you who don't already this is going to be a Continuation Fic.

Japanese words to know:

Godaime –Fifth Hokage

Yondaime- Fourth Hokage

Kunai – leaf-shaped blade with a handle with a ring at the end

San – suffix for Mr./Miss/Mrs

Chan/Kun- suffix usually added to the end of a name between friends or when someone older is talking to a child or someone younger then themselves

Sama – suffix for Lord/Lady

Kyuubi – nine tails

Hokage – The Fire Leader of the Shinobi

Shinobi - Is a ninja though technically it means, basically, one who is skilled in stealth

Jutsu - techinque