This is a true fusion of the 3 routes in Fate/Stay Night, but done proper as opposed to the anime. I've mapped out the entire story, so I know where it's going and when certain events will happen, and I've also divided it into 2 big arcs. The first arc is a mixture of Fate and UBW, while the second arc uses UBW and Heaven's Feel, though elements from all 3 will be present throughout the entire narrative.

The Throne of Heroes

Outside of time

The Throne of Heroes, a metaphysical location that existed outside the boundaries of time and space, and the resting place for the Heroic Spirits that were once histories greatest heroes.

However, one soul within the Throne felt anything but heroic. A unique existence, he was both a Heroic Spirit, and also a part of the Counter Force.

He had offered himself, body and soul, to the World in exchange for a miracle. He was transformed into the hero he always wished to be, and defended the World he had loved multiple times.

Now, however, he had come to realize that the 'miracle' he had begged for was in fact a curse.

Time and again he was forced to act against his morals for the sake of others, and in doing so, doomed himself to a tragic end.

Now only a soul, he simply existed. No sleep would come and relieve him of the painful memories. He was forever conscious, reflecting on his past mistakes and searching for a way to escape his cursed existence. Years, decades, centuries, it was impossible to tell how much time had passed on the outside while he contemplated a way to escape, but finally it came.

If he had never been so foolish as to pursue the ideals of another, he wouldn't have made the pact and therefore, he would have never been forced to endure his role as Guardian of the World.

But to go back in time and prevent himself from acting wasn't a normal phenomenon. That kind of act could only be described as a miracle.

It made sense, since miracle got him into this mess, a miracle would also get him out. But simply being a soul meant he couldn't act, let alone influence the start of a miracle. He would need outside help, but at present all he could do was pray that aid would come.

So he prayed.

Fuyuki City

Year 2004

Matou Mansion

It was finally time to begin the next war. But first, the vessel needed to be prepped.

The dark and hunched form of the Matou patriarch slowly moved along the corridors of the estate. Finally reaching his destination, he extended a bony and withered hand towards the handle of an old rust covered iron door.

Opening the door, he made his way down a small set of steps and into the dark chamber, the only source of light present being a few lit candles resting on several of the tables arranged within the room.

The arthritis in his legs caused some minor discomfort, which only added to the grim expression on his face.

Finally he came to a stop, right at the side of a large examination table. On the table lay his latest, and hopefully greatest, project. His eyes roamed over the naked form of a young sixteen year old girl, looking for any signs that his experiments had caused further alteration to the body's physical and magical properties.

His expression hardened somewhat when he noticed the signs that indicated Shinji had been with the girl before she was brought into the chamber.

Numerous bruises were littered across her body, most especially around her arms and nether regions. Clearly his grandson knew not how to control himself when around a woman.

'I've told that idiot to restrain himself right before my experiments.'

Sighing at the incompetence of his grandchild, Zoken Matou readied his instruments and calmly looked down into the girl's plum colored eyes.

"Remember, you are to lay there and not make a single noise during the procedure. Understand?"

The young girl meekly looked up at the shriveled face of her tormentor, having long since learned to repress her emotions during these sessions.

She had stoically endured the pain and abuse over the years, yet today, for some reason unknown to her, she failed to prevent the slightest bit of fear from leaking into her voice.

"Y-yes, grandfather."

Tohsaka Mansion

A dark room, lined with dozens of tomes of arcane knowledge gathered by the prestigious Tohsaka family over the centuries. Within the confines of the small study, a single person stood at the room's center, surrounded by a red arcane circle.

Rin Tohsaka, the young heiress to the Tohsaka lineage, mentally checked off everything needed to perform the summoning ritual. There was the circle drawn upon the floor, the Dagger of Azoth in her right hand, and her most powerful prana charged gem hanging around her neck.

Good. All that was left was to say the chant.

I summon thy body to come unto my side, my fate unto they sword.

By the Holy Grail, tonight, answer my summons if thou dost abide by this call.

This is my pledge.

The circle at her feet began to give off a faint glow as the mana in the air began to gather and condense.

I shall become all good of eternity.

I shall spread all evil of eternity.

Thou, defender of the Three spells, come forth from the binding circle!

To finish the summoning ritual, the young magus took the dagger in her right hand, and pierced the skin of her left hand. A single drop of blood fell from the shallow cut and landed within the circle, igniting a brought crimson light that filled the entire mansion. Despite being blinded by the spell, Rin clearly heard a crash within the mansion. Most likely signifying the Servant's arrival into the physical plane.

'Its working!'

Once the light had vanished, Rin looked up in anticipation for the Servant she had called. Her excitement soon vanished when she saw that she was still alone in the room. 'Huh?' She looked around to make sure that the Servant wasn't just obscured by the shadows, still no sign.

'What went wrong?' She didn't ponder this long, for the sound of footsteps echoed from the upper levels of the mansion.

Quickly exiting the room and making her way up the flights of stairs, Rin came to the entrance of her late father's study and hastily slammed the door open. The sight that greeted her wasn't quite what she expected.

The room was a disaster, furniture and other decorative items damaged and toppled over. Debris from the newly formed hole in the ceiling further added to the image of the destroyed room, which was bathed in the pale light of the full moon.

Then she saw him, calmly lounging on the remains of an old curio cabinet. The newly summoned Servant was decked out in red and black garments, not unlike her own attire but of an unfamiliar material.

"Jeez, what a Master I've been given." The Servant sighed.

That comment pulled Rin out of her stupor, and she quickly fixed the arrogant Servant with a scowl.

"And what is that supposed to mean?" She indignantly placed her hands on her hips.

They could both tell that this was going to be a long war.