AN: Alright, this story is a genuine crossover of Harry Potter and Fullmetal Alchemist Brotherhood and the story of how Harry got to that world will be explained in flashback as I'm going through the story in the same order and timeline as the episodes of the anime.

AN2: I'm also referring to Bradley as 'King' instead if Furher but I can't remember if King was his name or his title in the anime. If I'm wrong just tell me in the review box and I'll fix the chapter.

AN3: While this is a crossover it won't cover much of the actual Harry Potter world as that is going to be in the sequel story.

Black Iron Atronach

Chapter 1

-Mustang-

"The Freezing Alchemist?" he asked in surprise as he turned to his leader, King Bradley "He's here?".

"We received intelligence that he managed to slip in a few days ago which is why I summoned you. I need you and your men to smoke him out and bring him in.".

"Consider it done Sir!" he stated firmly, proud of the chance to impress his King.

Before he could leave though he noticed an amused gleam enter his commander's eye, "Oh and Mustang, one more thing. I'm placing our rising young stars at your disposal for this mission." Causing him to slump in on himself.

"Forgive me Sir," he asked warily "but are you referring to…".

"Yes I am," Bradley stated with a nod "the Fullmetal Alchemist Edward Elric and his brother the Black Iron Atronach, Hadrian Elric.

-Harry-

"Damn it," he heard Ed groan out "the Colonel's never gonna let us out of here, is he?".

"With us here it could go either way," he answered with a grin "he'll either want to keep us here to piss us off or try to get the case closed as quickly as possible to get us the hell away from him.".

"Then maybe you two shouldn't antagonize him so much." Al suggested hesitantly causing Ed to growl angrily while he laughed.

"But come on Al," he said, shaking his head in amusement "it's so much fun. I use a little 'fire power', change up my hairstyle, and BOOM, everyone thinks I'm his kid. I even had his assistant Riza fooled at one point.".

"Yeah, well we already bought our tickets to Liore so try not to make him too angry." Al pleaded desperately causing him to groan before relenting.

Suddenly he heard screams of fear and pain causing him to look down, seeing the flash of ice appearing as he pointed down at the alleyway, "There he is!" he called as they rushed down, seeing him kill two others before Ed growled and used his alchemy to make a spear and then throw it while Al went around to flank the guy.

"That's Alchemy." Their opponent stated after jumping back to avoid being impaled.

"What a nasty thing to do." Ed said as he walked out into the light.

"It is effective though, perhaps I should replicate it?" he added in as he joined his brother.

"You of all people should know great things require great sacrifice." Their suspect said, his face and eyes screaming of madness "Isn't that the law of equivalent exchange?!".

"The laws of Alchemy don't justify murder!" Ed snarled angrily before clapping his hands together and grabbed his spear, transmuting it into what he jokingly referred to as the 'Ed Bat'.

"No transmutation circle." The man breathed in awe causing him to smirk.

"Don't be too impressed," he said as he summoned a ball of fire in each hand and charged, crying out "Now!" as Al jumped from behind a corner and took a swipe at the man, causing him to duck while they charged forward, Ed taking the lead and swinging his bat as the man used his gauntlet to block it before grabbing Ed's right arm and activating the seal, causing Ed to grunt and stumble back.

"What?!" the man exclaimed in shock "Any water there should have exploded!".

"Well if it's any consolation, you ruined my coat." Ed growled, pulling the shredded red fabric away to reveal his autommail right arm.

"An automail right arm," the Freezer said, piecing the facts together "A young gifted alchemist, one who doesn't use transmutation circles, and has an automail right arm." At this point the man's eyes hardened "I know you," he growled "you are the Fullmetal Alchemist, Edward Elric. Which means the guy with the black hair is your twin brother, the Black Iron Atronach.".

"What gave me away?" he asked with a snort "the fireballs or the fact that I have two black automail arms with spiked knuckles?".

Isaac ignored him and pointed in confusion at Al "So it's not you?" causing Ed to growl and get a tick mark on his forehead.

"Uh, no. I'm their younger brother, Alphonse." Al admitted sheepishly.

"But he's a runt." Isaac deadpanned causing Ed to snap.

"Oh yeah?! Can a runt do this?!" Ed screamed before slamming his hands into the ground causing parts of the alley wall to shoot out and tightly pin down Isaac.

"I've heard the stories but I never could have imagined this," Isaac managed to get out, his voice somewhat muffled by his face being squeezed between stone "the Fullmetal Alchemist is just some little kid." Causing him to sigh and slap a pinch the bridge of his nose at the man's idiocy.

"Don't call me little!" Ed screamed, slamming his hand into the wall causing a hand of stone to shoot out and send Isaac flying.

"You know brother…" Al said nervously "I don't think he was talking about your height just there." Causing Ed to freeze before going back to growling.

"Well even if he wasn't he still pissed me off!" Ed yelled causing him to sigh in exasperation at his brother's antics.

-Mustang's Office-

"Looks like you underestimated your opponent Fullmetal." their commander, Colonel Mustang said smugly while he sighed in annoyance, Isaac having used a hidden transmutation circle tattooed on his hand to escape.

"Who is this guy anyway?" Ed asked causing him to sigh at how, once again, his brother didn't pay attention to things.

"You'd know this if you listened to the briefing like I told you to," Mustang stated smugly causing Ed to twitch "but Noooo, you had to go charging right in.".

"Okay, okay I get it, I'm sorry, whatever." Ed said quickly, trying to get the verbal dressing down to end.

"Well here's some advice," Mustang said with a smirk "next time a superior tells you to pay attention…you might just try it.".

"Come on Pops," he said with a grin, causing Mustang to twitch at the nickname "you know Ed's never going to be one to listen.".

"How many times do I have to say it?!" Mustang demanded angrily "I'm not your father?!".

"Are you sure?" he asked jokingly before summoning a fireball "I mean…who else has fire powers like these?" causing Mustang to slam his forehead onto his desk in exasperation.

"Moving on!" Mustang growled while he smirked and Ed shot him a thumbs up. "His name is Isaac McDougal or, as he was called in the military, Isaac the Freezer. He's a former state alchemist.".

"Specializing in water and ice based transmutations," he said with a nod "often using nearby sources of water for his attacks and, in emergencies, his drinking supply. His preferred method of combat though is to get close and either freeze or boil the water in a person's body. I even heard a rumor that he can use his own blood to transmute things. He served in the Ishvalan war before turning in his commission and going into hiding as soon as the war ended. ".

"While the blood is unconfirmed the rest is true…but how did you?" Mustang began before he gave a derisive snort.

"I'm the military Atronach, remember?" he asked with a snort, using his power to manipulate the water on the colonel's desk "I looked up the information on the State Alchemists, both current and former, that elemental based attacks like that in case I ever had to fight with or against one.".

"He does control natural elements," Ed said with a shrug "it would make sense for him to know about that sort of info.".

"Anyway," Mustang said, moving over to look out the window "after leaving the Military he joined the anti-establishment movement and has been working with them ever since so bringing him in is a top priority…whether dead or alive is up to him.".

"No way," Ed said softly "I'm not killing anyone for you." Causing him to sigh. He and Ed may be like brothers but there were several things they had radically different views on, this being one of the biggest. Ed refused to kill anyone no matter the cause while was willing to kill someone if they were trying to kill him or someone else.

"And that's your choice," Mustang said in understanding, this being one of the few areas that the Colonel would not mock Ed on "your orders are simply to help us contain him…nothing more.". The moment quickly ended when he saw Mustang smirk, "Off topic, have you turned up any leads to get your bodies back to normal?" causing him to sigh softly, an action which was mirrored by Al and Riza.

"Maybe if you ever gave us time to look!" Ed snarled but, before his brother could continue his rant, the door slammed open.

"Roy!" an overly happy voice called out, causing them to turn and see a man with spiky hair and rectangular glasses walking in. "How goes? Heard you let them put you in charge of catching the freezer huh? One nasty assignment, but hey, who knows, it may be that chance to earn that promotion to Central!".

As he saw the man go on his little happy rant, and Mustang subsequent annoyance, he snorted in amusement causing the man to turn to them. "Oh hey! My timing must be perfect, you three are the Elric brothers, right?". Rushing over the man grabbed Al's hand and began shaking it up and down rapidly, "Wow!" the man enthused "it's a real honor to meet the youngest state Alchemist ever! You're a real legend around here! I'm Lieutenant Colonel Mayes Hughes, a pleasure!".

"Um…you want Edward, I'm his younger brother Alphonse." Al said, pointing at Ed who was glaring at the now named Hughes and giving off an aura of death.

"You're the Fullmetal Alchemist?" the man asked in shock "I had no idea you'd be so…" the man trailed off, finally realizing Ed's less than happy attitude.

"Hughes!" Mustang called out "What are you doing here? Go home.".

"Actually I'm here on official business." the man said causing Mustang to do a double take before Hughes turned to them "Elrics," he said with an easy going grin "I understand you three don't have a place to stay tonight…" at this point the man's glasses gave of an ominous sheen "that means you'll have to come with me." Before Hughes's hand shot inside his jacked quickly as he began pulling something out causing Ed and Al to freak while he laughed, seeing that it was a picture.

The picture showed a beautiful woman holding a little girl while Hughes gave the wide smile that only a proud father could give "My wife Gracia and my daughter Elesia, we'd love to have you!" the man enthused causing him to grin.

A little while later they were standing in front of an apartment while Hughes got down and scooped up the little girl from the picture into a hug, while she laughed and squirmed "Ow daddy, your beard is itchy!".

"Like this?" the man asked happily while rubbing his whiskered cheek against his daughter's smooth skin "Itchy! Itchy!" causing him to laugh happily at the sight. "Look we have guests," the man said after a moment, "these are the Elric brothers.".

The little girl stared at them with a serious look before pointing at Al "Big brother," then at him "little brother," and then at Ed "littlest brother!". Causing Ed to grind his teeth angrily.

"Sorry little one," he said with a laugh as he knelt down to her level "you have that backwards. Ed here was born first, then me, and then Al. Al was born on opposite day though so he had to be the biggest a she can't do anything normal." Which caused Ed to not blow a gasket while the little girl made an 'oooh' of understanding.

Moving on they all sat down to eat dinner, dodging their question about Al not taking of his suit of armor by saying it was a form of Alchemy training and he was fasting at the moment, before their daughter Elesia turned to him to begin asking questions. "Why are your arms a different color? Why are they shiny? Why are your knuckles so point? Why is your hair black while theirs is blond? Why…".

"Elesia," Hughes's wife scolded her daughter "it's not polite to ask so many questions.".

"No, no, it's alright." He assured the woman before smiling at the little girl. "Well let's start with the easiest question first. My hair is a different color than my brothers' because I was adopted into their family a few years ago so we aren't blood related.". As he spoke he noticed Hughes looking at him with an intrigue that equaled his daughters. "As for the other questions…" at this point his smile faded away as he gripped his automail arms, remembering how he got them. "A bad man hurt me before Ed and Al adopted me as their brother…he destroyed my arms to the point that I couldn't use them. Thankfully my big sister Winry was able to make me a pair of metal arms but…" here he sighed and stood up. "I'm sorry, I'm not very hungry anymore." He said, giving a polite bow of his head before walking out to the room they had been shown earlier.

A few minutes later he sat in the windowsill of his room when he heard Hughes enter, "I'm sorry about any painful memories my daughter may have brought up," Hughes said apologetically "she can be extremely curious.".

"It's alright sir," he said with a sad smile "I just didn't think she was ready to hear what I went through to get these arms.".

"Would you mind telling me what exactly it was you went through?" Hughes asked as he moved over to sit in a nearby chair.

Sighing he leaned his head back against the window frame and stared at the moon rising in the sky, "I don't remember the first year of my life," he began "not really. Just flashes of a memory from the turning point in my life…I do remember the ten after that though. When I was a year old my parents abandoned me, dumping my on the doorstep of my mother's estranged sister who hated my 'family' with a passion where I spent ten years as a slave.". As he spoke Hughes gasped in horror, gripping the arms of his chair with enough force he was surprised they didn't crack "My bedroom for those ten years was the cupboard underneath the stairs, I was given the barest of scraps to eat if anything at all and if I ever disobeyed them, or showed up my cousin, or just if they were bored I would be beaten. Then, on the day I turned eleven, a letter came for me from the boarding school my parents had gone to for years that trained alchemists. My aunt and uncle were furious as they saw Alchemy as unnatural and they gave me my worst beating yet. The started by breaking my arms and legs in as many places as they could before using a knife to carve as many insults into my limbs as possible and then burning the skin to the bone. I somehow activated some sort of alchemical teleportation and wound up in an experimental array that Edward had been working on, the one that went wrong and cost him his arm and leg. They took me in and saved my life, gave me new limbs to use so I could walk again…I owe them everything.".

"Where are these people?" Hughes growled angrily "Your birth parents? Your aunt and uncle?".

"I don't know," he said with a shake of his head "I know it was some island of the continent but that's all…I wasn't exactly allowed out of the house much.".

"I'm sorry about making you talk about this Harry." Hughes said sadly, tears shining in the man's eyes as the lieutenant colonel bowed his head in shame.

"It isn't your fault sir," he said shaking his head "I've moved on from most of that by now, my family helped a lot with doing so. I don't care as much that I was a slave as I have a goal, to help others stay free. I don't care as much that my parents abandoned me because they thought I would be weak and my sister strong, it gives me a reason to push on. I don't even care about having these arms, I actually prefer them." As he spoke he sighed and looked up "I…I just don't want anyone else to have to go through what I did, I didn't want your daughter exposed to how cruel this world can actually be.".

"You're a good man Harry," Hughes said, walking over and giving his shoulder a squeeze "you'll go far in this world. If you ever need someone to talk to…my door's open.". Nodding his head in thanks he watched the man leave the room before returning to stare at the moon, feeling a little guilty about the partial lie he had told Hughes but he doubted Hughes would believe him…if he said he was from another world beyond 'the gate'.

AN: I plan to divide each episode into two different chapters, sometimes more depending on the part of the story it is in.