Don't own the Naruto series or Mass Effect Series

Hello everyone Bunji here, I like to thanks everyone who review this story so far and also Happy New Years yeah I know 11 days late but oh well XD anyway well tell more on this story down below after chapter ends.

Chapter II-Forming The Team part 1

"Shepard I know you've been out of action for two years. But we have some questions we would like to ask you." Miranda Lawson spoke.

"Miranda, Shepard is here. Trust me. The Commander was brought back." Jacob Taylor told Miranda.

"We have to make sure this is Shepard or everything we've done, everything we accomplished, was for nothing." Miranda snapped a glare at Jacob.

"Relax you two. If you want to know if it's the real me then listen to what I remember two years ago." Jane Shepard looked to her right staring out to the window viewing the empty vast of space.

"It's just another routine mission. Why do they always say that before a mission? Of course it's routine…you haven't done anything yet. It's everything that happens along the way, the choices you make, the path choose-that turn the routine into anything but. Of course that's how it started. A routine mission-answering a distress call. And look where that got me." Jane Shepard explained, obviously referring to the last thing that happen before her death.

"We were testing out the Normandy, Captain Anderson's new ship, when the distress call came in. An Alliance patrol on Eden Prime had been attacked. They'd seen something they couldn't explain. And whatever it was…it was massive. I hit the ground with my Lieutenant, Kaiden Alenko-a good kid. Loyal. By the book. With a talent for biotics. We came across the lone survivor of the patrol, Gunnery Chief Ashley Williams. A soldier to the core, Tough. Disciplined. Ready to take on whatever came her way."

"Good enough information you two?" Jane asked Miranda and Jacob.

"I never judge if it wasn't you Shepard. We just had to make sure it was you." Miranda told the red hair Commander.

"I can go on and tell you more if the information you needed isn't enough?" Jane said with a bored stare on her face.

"Aside from Kaiden and Ashley who else do you remember that help you on your journey two years ago Commander?" Miranda asked.

"Ah yes," Jane smiled "Well beside those two, I had a…odd group who became my friends. The first being Garrus, a turian who wanted to help. A top agent of C-Sec, carrying out an investigation on Saren despite orders from his superiors that he shouldn't get involved. Garrus was one of the most trustworthy soldiers I have ever had. When it came to hitting your mark Garrus was the turian for the job. I'm glad I had him."

"Then there was Wrex, biggest, nastiest looking Krogan bounty hunter I'd ever seen. Real hardassed mother-fucker, but it turned out he was more than brute force. It was his Intel that led us to a fugitive with incriminating evidence on Saren. That fugitive turned out to be an energetic little quarian named Tali. A tech expert with a knack for hacking, with her evidence we proved Saren was dirty and needed to be stopped. Crazy teenager with a shotgun and a quarian hatred of Geth? Just what we needed. Another close friend I made on my journey…Liara. An expert on the Protheans. Adept in biotics, when it came to Protheans, Liara just couldn't keep quiet about it. There was no book worm like Liara, although it was kinda funny to tease her." Jane's smile faded as she wonders what has become of her friends she had met as she was dead for two years.

"On Virmire, where you destroyed Saren's cloning facility. You had to leave one of your squad behind to die in that blast." Miranda said.

"Lieutenant Kaiden Alenko was killed in action. It was your call. Why did you leave him behind?" Jacob asked Jane.

The memories of day never faded from Jane's heart.

"I left a close friend to die that day; I didn't do it because I wanted too. I had to save as many people as I could. Kaiden was a soldier and my…friend. He knew what had to be done and gave his life for rest of the team. Without him I couldn't have stopped Saren. He died a hero. Thanks to him, we got everyone else out alive." Jane told the two Cerberus agents as look of anger came across her face.

"I understand, Commander. And I wasn't judging your decision. Everyone knew that cloning facility had to be destroyed." Jacob said.

"Shepard your memory seems solid. There are other tests we really should run-" Before Miranda could finish Jacob cut Miranda off.

"Miranda, the memories are there and I can vouch for Shepard's combat skills personally." Jacob smirked at Miranda. Miranda sighed, but nodded her agreement.

"I suppose you're right. We'll have to wait and see whether The Illusive Man accepts our little test as evidence enough." Miranda said.

"Who's he?" Jane asked.

"You'll see soon enough Shepard." Lawson smiled.

Upon landing at a nearby Cerberus space station. Shepard, Miranda and Jacob departed from their small ship and entered the station. From there Miranda told Shepard to enter a nearby room to greet The Illusive Man who waited for the Commander.

However upon entering the small room. There was a pad on the bottom. Shepard stepped on the pad and she was being scanned by a device. And before her very eyes she saw the image of The Illusive Man before her.

"Commander Shepard." The Illusive Man said warmly. The Illusive Man was relaxing in his chair, enjoying a smoke while having a pleased look on his face.

"Illusive Man. I thought we'd be meeting face-to-face." She said.

"A necessary precaution. Not unusual for people who know what you and I know." He told her.

"You might be the reason I'm still alive, but that doesn't mean I trust you." She said with a bored stare.

"You need to put your personal feelings beside. Humanity is up against the greatest threat of our existence." The Illusive Man frowned.

"The Reapers." Shepard frowned also.

"Good to see your memory's still intact. How are you feeling Shepard?" He asked.

"I was told you made some 'upgrades' while I was asleep you didn't add anything 'good' did you?" Shepard glared at the Illusive Man.

"We needed you to back how you were. Adding a few things to rebuild you was needed. You were quite a mess when we rebuilt you, Shepard. Hope you don't mind few scars, we didn't have time to complete you one hundred percent." He explained. He notices Shepard's odd eye colors.

"Records show you had blue eyes while you work the Alliance. Wearing contact lenses over your natural eyes, I suppose everyone has their reasons." He smirked.

'Asshole.' She thought.

"Cerberus isn't evil as you believe. You and I are on the same side; we just have different methods." He said.

"Cut the crap, why did you bring me back?" Shepard said coldly.

The Illusive man rose up from his chair "We're at war. No one wants to admit it, but humanity is under attack. While you've been sleeping, entire colonies have been disappearing, human colonies. We believe it's someone working for the Reapers, just like Saren was. You've seen it yourself. You bested them all. That is just one reason why you were brought back."

"Why doesn't the Alliance step in do something about it?" She raised an eyebrow.

"After the attack of Sovereign they're rebuilding, still stretched too thin to waste any time on anything Reaper related and willing to blame the abductions on mercs or pirates. Only you know what's really going and will do something about it. You're unique. Not just in ability or what you've experienced, but what you represent. You stood for humanity at a key moment. You're more than a soldier-you're a symbol Shepard. I don't know if the Reapers understand fear, but you killed one. They have to respect that." The Illusive Man told Shepard, a faint smile on his face.

"Geez, you make it sound like I'm somewhat of a God?" Shepard rubbed the back of her head, she didn't believe Cerberus had put that much faith in her.

"Don't let it go to your head. You're still Commander Shepard." He shook his head lightly.

"If what you say is true, if the Reapers are behind this…I'd consider helping you." Shepard closed her eyes while fold her arms over her chest.

"I have a shuttle ready to take you to Freedom's Progress, the latest colony to be abducted. Miranda and Jacob will brief you." The Illusive Man took a seat back down on his chair." He waited for what Shepard had anything else to say.

"Miranda killed Wilson in cold blood. Jacob's a gun for hire. You expect me to trust them?" Shepard open her eyes only to stare with unpleased look.

"Wilson was one of my best agents but he betrayed us. Miranda did exactly what I expected of her. she saved your life in more ways than one. Jacob's a soldier, one of the best. He's never fully trusted me, but he's always been honest about it. You just have to trust them Shepard." He said.

"I still don't like this."She frowned.

"You always have a choice, Shepard. If you don't find any evidence we're both looking for, we can part ways and you go back to your normal life. But go to Freedom's Progress, a favor after what we done for you. It's the least you can do for us." He was right, Shepard owed them her life. Shepard let out a sigh and gave a nod.

'Something tells me I'm going to find more than just few answers.'

'Upon our journey to Freedom Progress I ran into a familiar face. Tali, my old crew mate and one of my best friends. It seems that Tali and her squad were looking for a quarian by the name of Veetor. Its been two years since I last saw Tali and it must have been quite a shock, judging by how surprised she was to see me. It's good to know those closest to me cared.

With Tali's help, Miranda, Jacob and I were able to find out what was going on. It seem that the colonies of humans that disappear turned out to be in the hands of a race called The Collectors. If these Collectors were working for the Reapers we needed to act now and right away.

I let Tali take what was left of her squad and Veetor back to her ship. Veetor have been through a lot seeing the horrors the Collectors have done to the people of Freedom Progress. We return to the space station to inform The Illusive Man what had happened on Freedom Progress and from there our journey truly began.'

Cerberus Space Station:

"Shepard. Good work on Freedom Progress. The data that Veetor collected didn't give us any information we didn't already know. But we at least we now know who are going after the colonies one by one. The Collectors are behind the abductions." The Illusive Man said.

"Why do I get the feeling you knew that already?" Shepard raised her left eyebrow.

"I had my suspicions, but we needed proof. But thanks to you we now know that rumor is true. The Collectors periodically travel to the Terminus System. When their transactions are complete, they disappear quickly as they arrived, back beyond the unmapped Omega 4 relay." He explained.

"Why the is Omega 4 relay unmapped?" She asked.

"Because no ship has ever returned from it. Our best guess is they are using that location for their hideout. If they can manipulate relays, that's just further evidence of the connection with the Reapers. The Council and Alliance want to believe the Reaper threat died with Sovereign. You and I know better, that was just one Reaper and looked how much damage only one can cause." Shepard agreed with him, what he told her was the truth. One Reaper alone caused so much damage and just think if they had to face ten or one hundred of them?

"If this is going to be a war, I'll need an army. Or a really good team, a large team." She told him.

"Ah. I've already compiled a list of soldiers, scientists and mercenaries. You'll get dossiers on the best of them. Finding them and convincing them to work with you could be challenging, but you're a natural leader Shepard. I'll continue to track the Collectors. When they make their next appearance, I'll notify you and your team, be ready." He explained to Shepard.

"You can keep your list. I want people I can trust-like my old team. You know, the ones who helped me stop Saren and the geth, the ones who helped me blow the fuck out of Virmire, ya know. That team." Shepard told him sarcastically, despite her deadpan expression.

"That was two years ago, much has changed Shepard. While you were being rebuilt, most of your crew has moved on or their allegiances have changed. You having your run in with Tali was unexpected. I need more Intel before I'll commit to that." His information was really starting to piss Jane off.

"Okay, I get it. They're not available." She sweatdropped.

"You're a leader, Shepard. You'll get who you need. But in meantime there's a Galaxy waiting for you. but first two things before you go. First head to Omega and find Mordin Solus. He's a brilliant salarian scientist. Our intelligence suggest he may know how to counteract the Collectors' paralysing seeker swarms." He told her.

"And what's the other thing?" She asked.

"I've found a pilot I think you might like. I hear he's one of the best." The Illusive Man had a smirk on his face as the connection link between the two was finally cut.

"Commander. Just like old times, huh?" A familiar voice spoke. Jane Shepard looked over her right shoulder to see her old friend and former pilot of her ship.

"I can't believe it's you Joker." Jane smiled.

"Look who's talking. I saw you get spaced." Joker smile back.

"I got lucky, falling from space is one hell of a trip. " Jane joked. Her death meant little to her, she was alive now, that was all that mattered.

"It all fell apart without you, Commander. Everything you stirred up, the Council just wanted it gone. Team was broken up, records sealed, and I was grounded. Everything was taken from me. Hell yeah I joined Cerberus." Joker explained to Jane.

"Do you really trust The Illusive Man?" She asked.

"I don't trust anyone who makes more than I do. But they aren't all bad. Saved your life, let me fly." He said with a smile.

"Think we should give him a nickname?" Jane chuckled at Joker's idea.

"T.I.M. sounds about good." She said.

"You think so? I was going to call him Flash-Eyes. Have you seen his eyes? There's something odd about him. Oh, and Commander? Follow me. I got to show you something I know both you and I will like." Jane followed Joker out of the small room to the upper floors where there was a large window. From there Joker waited to see the look on Jane's face upon what she saw behind the large window.

Jane's eyes widen in surprise for what she glaze upon. From behind the large window was a giant hanger which held a copy of Shepard's old spaceship the Normandy.

"They told me last night about it." Joker told Jane.

"I guess we have to give her a name." Jane said.

Few hours later upon the Normandy:

"Welcome to the new Normandy Commander." Jacob said.

"It looks almost just like the original." Jane looked around the ship as she was just amazed by what they done with the ship. Though she did notice few new things added to the Normandy 2 she calls it.

"Looking over the dossiers. I'd strongly recommend starting by acquiring Mordin Solus, the salarian professor on Omega. We'll need him to develop that counteract to protect us from the Collectors swarms they been using to capture their prey." Miranda reminded Shepard.

"Yeah, without that countermeasure our ass is grass if ever ran into those Collectors, but fucking remember who is in charge here, cheerleader. My ship, my rules." Jane replied, nodding to the genetically modified human.

"Acquiring Professor Solus seem like the most logical place to start." A new voice spoke.

"Who said that?!" Jane looked around. Suddenly behind Shepard appeared was an image of a small blue orb.

"I am the Normandy's artificial intelligence. The crew like to refer to me as EDI." The A.I introduced itself to Jane.

"Joker won't like this. When someone take control of a ship from him." Jane shook her head.

"I do not helm the ship. Mr. Moreau's talents will not go to waste. During combat, I operate the electronic warfare and cyber-warefare suites. Behind that, I cannot interface with the ship's system. I observe and offer analysis and advice. Nothing more." EDI Explained.

"The new Normandy has a full crew. They're at their stations waiting your orders. Jacob and I should return to our post. Come find us if you have any questions Commander." Miranda said before departing.

'And so it begins.' Jane thought to herself.

Somewhere in the Galaxy: Omega

Omega, built in the mined out husk of a metallic asteroid. Omega, a haven for criminals alike. However, all who live on Omega respect and obey the rule of one woman: an asari by the name of Aria T'Loak. Anyone who disrespects her, or even dares to get in her way meet a sickening end, either quickly or slowly. However there are many things the people of Omega respect and fear Aria for. As wherever she goes her guardian isn't far from behind. On top of a rooftop of a building was a being cast in shadow while looking down upon the lower levels of Omega. Suddenly an incoming radio transmission was heard.

"Hey Guardian. You're needed." The voice said over the radio.

The unknown person sighed.

"What is it? I'm busy hunting, it's much harder to find those bastards. They're like cockroaches now, ever since Archangel showed up. Not that I'm not bitching or anything he's making my job a damn sight easier." The unknown person said.

"Aria needs you. She wants you to greet her new guest that will be arriving soon."

"New guest? It's been awhile since Aria ever had guests. This should be fun. Patch me in, I want to speak with her." The unknown person said.

After waiting for awhile the unknown person heard Aria's voice asking him what's wrong.

"Having some guests, huh? It's been awhile, these guest or guests, ya want me to kill them, or play with them?" He chuckle.

"I want to make sure these guests are who the rumors SAY they are. Just make it quick and don't goof around, I know you love to play with your food…Eddie."

"Bah, when it comes to having fun you sure know how to kill it…well unless you're the one playing." The unknown person laughed.

"The guest I am most interested in is female so keep your dick in your pants."

"Relax I'll be a good guardian. Beside if my wife knew I was poking other females beside her and you do you really think I would be here talking to you now?"

"I'll keep that in mind later."

"Well since the cockroaches won't show up, I guess I can kill the boredom by making your guest feel at home. I can't wait to find out who your guests are." As the shadow cast over the unknown person lifted, he slowly came into full view. The unknown person was a man, wearing a black armor suit with glowing dark blue lines that would glow every five seconds. Before the camera went upward to view his face, from the neck of his armored suit was piece of metal that formed into his mask that covered his face. The helmet the man now wore had two breathing pads on each cheek, while the eyes of the helmet were dark blue.

"Time to greet our new guest." The armored man held out his right hand and with a simple twist of his wrist out came a 2 foot long katana blade. As smoke streamed out from the cheeks, the suit suddenly changed, from jet black to crimson red.

End of Chapter 2

From this point, not every word or action will be from the game, I only use this for some parts that all. I skip Freedom's progress mainly because I wanted to get right away to Omega which will be in the next chapter.

I skip most of the Shepard's background for this reason so I will introduce the rest of this for when the crew or Naruto ask Jane of her past more which I believe seem useful/needed.

Now most of you have question me about the harem Naruto's having and have asked a number of females to join the others in. Dr. Chakwas I had no idea she was that old. Her appearance seem a woman in her early 50 or late 40's so I will make her age deage her a bit.

And yes Tali is in Naruto's harem. So all of you can stop worrying or asking me about it ok? The rest of who's in the Harem will be shown bit by bit as the story goes on ok everyone? Now Naruto has a wife but I'm not gonna spoil who she is, you all will have to wait to see how it happen and why-evil chuckle-and she isn't from Naruto's world so relax everyone.

Well that's all for now everyone see ya!