AN: Hey guys, AuraStormMaster here with chapter 5 of 'Mad-Man with a Box' and apologies for the longer wait. There were some issues with the way I wanted to end this but I finally finished. Also , I'm honestly amazed that this fic has gained so much popularity since it was first posted. While this is the last chapter of this adventure, this won't be the last time we'll see our new Doctor. Make sure to either follow, favorite or leave a review telling me what you think, as your opinions help me improve my fics. More on that later, on with the show!

Disclaimer: I never have nor will I ever own Doctor Who or Harry Potter.

Key

"Wibbly wobbly timey whimey" – Regular Speech
'I could go a Jammy Dodger' – Regular Thought/Spell
"Avada Kedavra" - Spell
"We will destroy you" – Alien Speech

Previously on Harry Potter and the Mad Man with a Box

"You...you killed her." Hermione whispered, shock colouring her voice as she stared at the spot her DADA professor once occupied. Gritting his teeth, the Doctor stormed over to Dlugh, who quickly turned the blaster on the Doctor. Slashing the buzzing sonic screwdriver through the air, he caused the plasma in the gun to expand, destroying the gun. With a yelp, Dlugh threw the now smoking weapon to the ground, only to come face to face with an enraged Time Lord.

"No, no more death. I demand that you take me to your leader right now! No arguments, River" He turned to his 'wife', a hard look in his eyes "Get yourself and Hermione out-no do it, use the Portkey! And you, why are we still here, lead the way."

"Harry, what in Merlin's name are you doing?" Hermione cried as River dragged her away. Just before she vanished in a swirl of colour, she heard the Doctor's reply.

"I'm going to finish this, one way or another."

Chapter 5: Confrontations and New Beginnings

"So, tell me. Out of all the planets, in all the systems in the galaxy: why did you pick Earth to hide on? You lot tend to shy away from planets with large cities, and why are you attacking the humans?"

"Enough with the questions Time Lord!" snarled Dlugh, not even turning to face the Doctor. The Doctor's response was to maturely stick his tongue out the alien's back. To pass the time, he pulled out his sonic, only to frown as the viridian tip had darkened to a near midnight green.

"Well that is definitely not a good sign." He muttered as he stared down at the burnt emitter and grimaced. He gently flicked the activation switch, and sadly noted that the emitter's glow was near non-existent and the familiar bzzt had distorted severely.

"No, not good at all."

"I said SILENCE TIME LORD!" Dlugh roared, turning to glare at the Doctor and snorting at the sight of the degrading sonic screwdriver. "Touch this."

He had tugged out a small iron box, on which a polished wooden button rested. Stuffing it into the Doctor's hand, he stepped back a few paces and sneered.

"That is the return teleport; every one of us is equipped with two before our attacks." He pulled out another, although much shabbier looking, box. "That one will take you directly to the chancellor's main chamber."

With that, the Yvultion slammed down his button and vanished in a flash of crimson particles. Intrigued, the Doctor pointed his sonic at the box only to stop once he realised it would be useless to try and scan the box. With a grim smile, he pocketed the screwdriver and pushed down the button on his own teleport box...only to gasp as he collapsed onto a highly polished stone floor. Grunting slightly in pain, he pushed himself off the ground, and stared at his new environment. Like the floor, the walls were incredibly polished stone that he could see his own reflection staring back at him.

"Blimey I'm scrawny. Well, not as bad as ten but still..."

He trailed off and, reluctantly, pulled out his sonic and scanned the wall before him. Waving the weakly buzzing instrument for a few seconds, he released the emitter form the claws, allowing him to read the results from the central section of the screwdriver.

"Hello, what do we have here? Oh...that is brilliant!"

Grinning widely, he pocketed the screwdriver and turned to investigate the rest of his new location, only to find two plasma blasters aimed at his head.

"Well, I'm guessing it's safe to say that you two are the royal guards?"

The two Yvultions glared down at him, both were dressed in crimson silk robes and were clicking their beaks in anger.

"What do you think you are doing here, human?" Spat the one on the left, whose beak shone a topaz orange colour. His companion, a sapphire beaked Yvultion, glared down at him in disgust.

"Well, I ran into a friend of yours-Dlugh i think-and he had me teleported here." The Doctor grinned, getting to his feet and brushing himself down. Jamming his hands into his pockets, the Time Lord stared at the two aliens before him and narrowed his eyes at the two blaster still aimed at him.

"If you don't mind, I'd prefer it if you would lower your weapons. I'm here to see your leader and I don't think he'd be happy to find out you were threatening a guest of my importance, grandeur and-there goes my arrogant side again."

"And why, human, are you such an 'important guest'?" The topaz-beaked guard snarled, not once lowering his blaster as he and his fellow guard glared at the raven-haired male. The Doctor's smile was replaced by a cocky smirk as he pulled the near-dead sonic from his pocket and held it before him.

"Because I'm not a human, but a Time Lord!"

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"We need to help him!"

River growled as Hermione, once again, began to argue against the Doctor's orders. Currently the two were back in the Prime Minister's office, and were the sole occupants of the room.

"For the last time: The Doctor ordered that you were taken away from the sight."

"What about all those stories you told me, where you ignored his orders despite the danger you were in?"

"That's completely different." River snapped, as her patience was near its breaking point. However, the bushy-haired witch didn't sense this.

"How, how is it any different to our current situation? Do you mind telling why you won't help me save your Doctor-"

"He's not my Doctor anymore!" She screamed, her eyes shining with unshed tears. Silence filled the office as the two women stared at each other, before the older of the two sank down onto the two-seater couch. Wiping her eyes, River fixed the witch with a sad smile.

"As I told you, I was married to the Eleventh Doctor. While I still harbour feelings for him, he doesn't feel the same. Hell, it's been over a millennia for him since he last saw me. I'm afraid another took my place in his hearts, even if he never admitted it. Now, with his newest incarnation, I have no idea how to act with him. That's why it's different Hermione, this Doctor, while still the Doctor he isn't my Doctor. In fact," She gave Hermione a watery smile and offered her the Portkey "I think, you are the one he will need."

"Even if I do take the Portkey, how will I get to him? All it will do is take me to Hogsmede." River gave a watery smirk as she stuffed the Portkey into the girl's hands.

"The Doctor had it bio-locked. He left a hair here to act like a beacon, meaning that you should be able to use the Portkey to reach him."

"River, I can't-"

"Yes, you can. And do you want to know why I know you can?" Hermione stared at her blankly, before nodding her head. River chuckled before she stepped back, away from the brunette witch.

"Because the Doctor would never have brought you with him if you couldn't handle the danger."

"But he sent me away-"

"That's because he's a prat. He believes that only he should face the 'big bad' of the invaders, so that his friends won't be hurt."

"That's how he used to be, before he changed." Hermione muttered, staring into River's sad eyes. The older woman shook her head and laughed.

"Even as a human his self-sacrificial nature shines through. Anyway, go to him Hermione. Be with him while you still have the chance, don't end up like me."

With that, the older woman left the room, leaving the younger girl to stare after her in shock. Slowly, her gaze moved from the door to the Portkey she now held. Her mind finally coming to a decision, she tightened her grip on the device and stared once again at the door.

"River..."

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"Bit grandiose if you ask me, like I can talk-my TARDIS' usually large and impressive, much more impressive than this."

The Doctor gestured around the large, jewel-studded room with a look of disappointment. He turned his head and stared at the large Yvultion before him.

It was tall, much taller than the rest, standing at a height of 6'10'' with the usual aquamarine fur/feathers. However, this Yvultion wore fine robes of golden silk, while his beak was a solid obsidian-black like his eyes. Said eyes were filled with sheer malice as the alien glared down at the Time Lord before him.

"How are you here, Time Lord? Your race is but a fairy tale told to those who require sleep."

"Me? A bed-time story? That is brilliant!" The Doctor grinned, hands stuffed into his pockets as he swaggered around the room, not once losing eye-contact with the large Yvultion. "Love a good bed-time story I do Snow White, Cinderella, Sleeping Beauty-I do seem to prefer the princess stories...anyway, I'm going to ask this for the third time." The playfulness drained from his face as his eyes hardened to the point they resembled the gem they were often compared to.

"What do you want with this planet."

The Yvultion glared at him, its hands tightening on his throne as rage coursed through its veins. How dare this...this...THING...demand him to answer him. Before he could move however, the Doctor whipped out his sonic and pointed it towards the Yvultion leader.

"One move I deem threatening and I'll amplify the sonic-waves times eight-trillion trebles."

"You bluff Doctor, by doing that you'll reduce your own brain to mush along with mine and my guards." The Doctor merely smiled grimly as his grip tightened on the screwdriver.

"Unfortunately for you, I'm an old man. Had I been younger I'd give you more chances but I've learned from my mistakes, now answer the question." Snarling, the Yvultion leader sank lower in his seat, defeat in his eyes.

"Our world was lost, oh so long ago. We have wandered the universe in search of a new home, we thought Earth would make a good replacement but to our disgust we saw the filth that covered the beauty of this world's natural resources. We were outraged that these 'humans' dared trample the gifts of the gods and therefore, we decided that these monsters deserved to be punished."

"You don't have the authority to punish those you deem criminals. That belongs to the Shadow Proclamation and even then, laws concerning the environment no longer apply due to the Earth's promotion to a level five planet over a century ago."

"The Shadow Proclamation holds no power over us." The Yvultion leader hissed, malice gleaming brightly in its obsidian eyes. The Doctor gave a grim smile as he played with the sonic's emitter.

"Maybe not, but I do. The laws of the universe and time itself belong to me and I deem you guilty of assault against an innocent planet. However, I will be fair and give you this one chance: leave this planet and never return."

"What will you do Doctor, if we refuse to leave this world?" The Time Lord's eyes darkened considerably as he pulled the teleport from his pocket.

"Then I'll stop you." He said simply, staring coldly into the leader's face. "You only get one warning, that was it."

Still staring at the leader, he pushed the button on the teleport and reappeared on the lawns of Hogwarts. Stumbling slightly, he was not prepared to be slammed to the ground as a body fell on top of him in a flash of multicoloured light.

"What the-Hermione?" He cried, staring at the mass of bushy hair currently covering his chest. Upon hearing her name, the girl in question pulled away from his chest and smiled brightly at the dishevelled Time Lord.

"Harry! You're alive, I thought that...when you left-"

"Easy there Mione, I'm not that easy to get rid of." Grinning, he leapt to his feet, pulling the brunette up with him. Turning to the school, he scowled slightly before grabbing the witch's hand.

"Hermione, I need you to do me a favour. Go up to the school and inform McGonagall what's happened...except that I'm alien."

"Ok but, what are you going to do?" The Doctor gave her a small smile before pushing her away slightly.

"Don't worry Mione; I just need to take care of some business. I will be back, and you will be my first stop."

With that, he picked up the discarded Portkey and vanished in a flash of multicoloured light. Once the light had vanished, Hermione turned and face the imposing image that was Hogwarts. Taking a deep breath, she made her way towards the castle, her mind quickly working on a story to tell her intimidating head-of-house/deputy headmistress.

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The dark office of the Prime Minister suddenly burst into life as the flailing figure of the Doctor appeared in a burst of light, and promptly crashed to the ground. With a loud moan of pain, the raven-haired male pushed himself, shakily, to his feet.

"I bloody hate Portkeys!" He snarled, tossing the magical transport away as he regained his bearings. Once his head stopped swimming, he made his way over to the computer he had played about with on his previous trip and grabbed the main 'tower'. Prising open the back, the Doctor pulled out his sonic and stared at it sadly.

"I'm going to miss you, after this."

Flicking the activation switch, he pushed the degrading instrument into the back of the 'tower' and booted up the system. Sinking into the desk chair, he tapped his fingers against the desk impatiently as the computer slowly began to start up. Once it had finally fully loaded, the sonic hacking him into the Prime Minister's main profile, his finger dashed over the keyboard. A new window opened, a black background with the stereotypical green lines of code running along the screen. His fingers moved even faster as he programmed the software the sonic had picked up in the Yvultion's hideout. With a flourish, he slammed down the enter button and leaned back in his chair.

A new window popped up, showing the scowling face of the Yvultion leader.

"Hello again!" said the Doctor, a bright smile on his lips as he stared into the obsidian orbs glaring at him.

"Doctor." Spat the Yvultion leader, hatred shining in its eyes. The Doctor brushed of the hostility as he kicked his feet up onto the desk, twiddling his thumbs.

"Now now, no need to get all catty." He scolded, wagging a finger at the image before him. "And here I though t we could have a little chat. First off, what's your name?"

"What does it matter to you?" snarled the alien, its teeth bared. The Doctor merely shrugged, crossing his arms as he spun the chair slightly from side-to-side.

"Well, I thought it was a little unfair that you know mine and I don't know yours. I mean, how are we to get to know each other-"

"Desgilthru, if that'll get you to stop babbling like a moron." Sneered the now revealed Desgilthru, the Doctor merely continuing to smile. His smiled widened as an alarm began to blare from the screen, panic shining in Desgilthru's eyes.

"Now that does not sound good, what's going on there Desgilthru-boy?" The Doctor queried, not once dropping his grin.

"Lankint, status report! What in the blazes do you mean we're losing power? That's imposs-" Desgilthru trailed off as he finally took notice of the Doctor's grin. "What in the name of nature have you done, Time Lord!"

"Well, I guess it's fair. Before your goons found me, I naturally scanned the area with my sonic only to discover that it had picked up on the software used in the majority of the coding in your ship/lair. Love the lair though, not many villains have lairs anymore."

"Damn you Doctor!" Desgilthru roared, spittle flying from his mouth as he fired off numerous insults and orders, which were quickly muted by the Doctor. After a few minutes, he returned the volume back to normal.

"Better now?" He asked, smiling cheerily at the panting Yvultion.

"What do you want Doctor?"

"By the time your power runs out, you'll be long gone from this planet. Although, that's only if you lot have already left already. If not, best get a move on."

"Doctor!" Desgilthru roared, only for the screen to cut to black as a small explosion of sparks erupted from the back of the 'tower'. The Doctor smiled sadly as he realised that his old friend was gone.

He was jolted from his thoughts as a deafening BANG sounded from outside. Leaping to his feet, he dashed to the window and stared in horror as a cloud of smoke could be seen streaking across the sky on a small downward slope. Teeth gritted, he glared at the smoking Yvultion ship, a question burning furiously in his mind.

"Who did this?"

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In a dark room, a figure could be scene relaxing in a recliner, a cold smirk plastered over their lips as they watched the exploding Yvultion ship crash into the Atlantic.

"Ignorant little race those Yvultions. Still, amazing how they could create such advanced technology from such primitive materials. Now," The figure stood, a small shaft of light revealing a black silk shirt covering there chest as the mysterious individual moved towards a dark oak door, a fond yet sinister smile worming it's way onto their features.

"How long until you find me, Doctor? As the game is only beginning and I know you will return. After all, apart from yourself, no one knows you like I do."

The door swung open, and a bright light silhouetted the figure, as he laughed darkly before vanishing into the room.

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Hermione looked at her fellow fifth years as they watched the famous Weasley Twins launch their signature firework show, to signal the end of the exams, with barely hidden boredom. Ever since Harry, no, The Doctor had left she had felt...empty. Like there was something missing. Her lips twitched upwards in a smile as she thought of the last time she had seen the Time Lord/Wizard.

"Don't worry Mione; I just need to take care of some business. I will be back, and you will be my first stop."

"Oh Harry." She sighed as she looked up at the fireworks that splashed across the sky. Some had written rude messages in the sky will others simply whizzed by or made other noises like bang, whizz, boom, Vworp, Vworp, Vworp, crash- Wait...what!

Vworp. Vworp. Vworp. Vworp. Vworp.

Turning to her right, she made her way through the crowd towards the grounds as the familiar sound got louder and louder with each step she took.

Vworp. Vworp. Vworp. Vworp. Vworp.

Soon enough, other students had begun to hear the noise and followed it in search of its source.

That of a slowly materialising blue 1960's police box.

Hermione stared in amazement as the blue box as it slowly faded into existence on the grounds several yards away from them. Once it had solidified, she began to walk towards the doors, slipping slightly on the mud under her feet. She began to pick up her pace until she was sprinting across the grounds, her once grey trainers now completely covered in liquid earth. She didn't stop until she reached the doors of the box, gently laying her hand upon the wood. Taking a deep breath, she gripped the door and, without looking back, pushed it open and walked inside.

She stared around the giant domed room in awe. The walls shone a burnt gold with glowing green hemispheres protruding from the walls in specific intervals. There were several brass platforms and walkways throughout the room. A ramp connected the doorway to two set of stairs: one leading down to another level and the other leading to another platform, which held a large console with a glass column attached to the top. The column held glowing pistons of a bright sapphire colour.

And there, next to the console, was her best friend: Harry Potter or, as he was called now, the Doctor.

"It's bigger on the inside." She stated simply, not one spark of awe in her eyes. The Doctor snorted as he fiddled with the console in front of him.

"Of course, it's usually much more impressive if you haven't already experienced 'bigger on the inside' technology before setting foot inside the TARDIS. Anyway, what do you think?" He called, turning to face her and gesturing to his outfit. A simple powder-blue long sleeved shirt covered his chest with an emerald-green skinny silk tie around his neck. A silver chain, which she knew held the watch that started this whole adventure, could be seen attached to the waistband of his black dress slacks and lead to his left pocket. Although, she noticed a pair of forest-green converse covered his feet.

"What's with the trainers?"

"It's been a while since I wore trainers, I like trainers now anyway."

"At least your hair looks the same." He pouted.

"Spent ages looking at clothes and all you look at is my hair, shame on you Ms. Granger."

Giggling, she approached the console and watched as he fussed around, turning various knobs and punching buttons.

"So, we've got a New Doctor, New TARDIS and," he noticed something silver poking out of the console and reached over to pull it out, revealing a sleek, black Sonic Screwdriver with strips of porcelain to serve as a grip, Gallifreyan engravings on the emitter's housing, an orange diode crystal attached to the emitter and a silver pommel capping the bottom, "A new sonic screwdriver!" he called, testing the new sonic on the console and grinning broadly as the familiar buzzing noise reached his ears. Flicking the activation switch, he silenced the buzzing of the sonic and turned to face the muggleborn witch with a toothy smile. "At least it's smaller than the last, much more subtle."

"So what are we doing now Doctor?" He stared at her in surprise.

"Why are you calling me Doctor, I thought I was Harry to you." She bit her lip nervously as she locked eyes with him: chocolate brown vs. emerald green.

"I thought you would prefer if I called you by your actual name."

"Nope, to you and only you, am I Harry. Everyone else calls me the Doctor." He began to walk around the console, completely oblivious to her slight blush. As he reached the console, he bent over slightly, gripping the edges tightly.

"Hermione..."

"Yes Doc-I mean, yes Harry?" She asked, slowly approaching the now tense looking Time Lord. With a deep sigh, he turned to face her with a blank expression.

"Are you sure that you are willing to do this?"

Taken aback, the girl stared at him with her mouth open in surprise.

"Of course, I mean, why wouldn-" She was cut off as he turned back to stare at the time rotor.

"I'm returning to my own universe, Hermione. Once I'm out I will need to seal off the crack that I slipped through and once that's done, there is no going back. Not for family, not for friends, they'll be gone forever." Turning to face her once more, he locked eyes with the witch, his age shining in the emerald orbs. "Can you live with the consequences of your choice, if not..."

He trailed off, not once breaking eye contact. She remained silent, having not properly considered the negatives of her decision. Nodding, the Doctor turned slightly when:

"Yes."

"W-what?" he sputtered, his eyes wide as stared at the brunette girl. The girl in question stared back defiantly, a smile fixed upon her lips.

"I said, yes. I'm willing to stay with you, why wouldn't I: you're my best friend Harry, and I'll always be with you no matter what."

Silence filled the TARDIS as the two continued to stare at each other. Finally, after a minute, the Doctor grinned madly and offered out his hand. Grinning back, Hermione ran to him and wrapped her arms around him in a hug. A hug in which the Doctor returned with a loud laugh, spinning the brunette witch around in a circle. Once they broke apart, the Doctor danced around the console energetically, flicking levers and pushing buttons before coming to a stop, glancing at his companion with a manic smile.

"So anyplace in space and time: anywhere, anytime wherever and whenever you want. So, answer me this: Where do you want to start?"

"Is there a random button?" she asked as she looked over the many buttons on the console panel before her. A massive grin spread over the Time Lord/Wizard's face as he stared at the Gryffindor witch.

"That is why YOU are my favourite person Hermione Granger."

Blushing crimson, she gripped onto one of the railings surrounding the console platform as the raven-haired male slammed his hand down on a rather large orange button, causing the TARDIS to rock violently as it hurtled through the Space/Time vortex. Once they were sure they had landed, they quickly made their way down the stairs and the ramp to the door.

"Wait!" The Doctor yelped as he made his way to a trunk next to the door.

"What's wrong Harry?" She watched as he dug out a black frock coat and threw it on, then tucked the new sonic in the inside pocket of the jacket. As he reached the brunette witch, he stuffed a hand into a trouser pocket and fished out a small silver key and handed it to her.

"What's this?" She asked, taking the key and studying it carefully.

"TARDIS key, now we can go." He had walked over to the door and gripped the handle of the door when the brunette girl, having recovered from the surprise gift, spoke up.

"You know, with the way you act, it won't be long until people believe that you're some mad man with a box."

Turning to look into her excited face, he gave her a serious look.

"Hermione Granger, there's one thing you better understand about me because it's important. And one day your life may depend on it." She stared at him curiously.

"Yes Harry?" A manic grin spread across his face.

He wrenched open the door, walking out with Hermione following him.

"I am definitely a Mad-Man with a Box."

AN: And done, holy crap this was difficult to write. But overall, I'm pleased with the way this has finished and hope that you guys have enjoyed reading it as much as I enjoyed writing it. Make sure to keep an eye out for the sequel and check out my other fics as you wait. I should have the last part of 'Summoner of Legends' should be posted soon, definitely before the end of the year...hopefully. This is AuraStormMaster, signing off.