Ch. 41Elementary Schooler Shirou's Class Is Now in Session

After completing Reines's commissions, Shirou visited Webber to say goodbye, but Webber asked him to substitute teach at the El-Melloi Classroom. Shirou introduced himself, disciplined Caules, and began explaining why students should choose paths suited to themselves, leaving the class with his promise to demonstrate the power of Projection Magecraft.

  • Shirou told Webber he was leaving, and Webber asked him to teach one class at the El-Melloi Classroom.
  • Webber introduced Shirou as the students' substitute teacher and warned them that misbehavior would earn them ten times the homework.
  • Shirou joked with the students, introduced himself, and heard Caules question why someone his age had been chosen to teach them.
  • Gray said Shirou's magical energy rivaled Holy Lance Rhongominiad, and Shirou appeared behind Caules with Sonido to silence his complaint.
  • Shirou told the students to choose paths suited to themselves and explained that his Projection Magecraft could create fakes nearly equal to the genuine articles.

Ch. 42Those People Who Looked Alike Back Then

Shirou searched Kanbiko City for Enjou Tomoe and found him being chased by three punks. After knocking out the punks with anesthetic needles and Sonido, Shirou revealed his trick to a terrified Enjou.

  • Shirou struggled to find Enjou Tomoe in Kanbiko City until Enjou ran past with three punks chasing him.
  • Shirou followed Enjou into an alley and claimed he was Enjou's brother, fooling both Enjou and the punks.
  • Shirou knocked out the first two punks with anesthetic needles and Sonido, pretending they had died from overwork and a foretold disaster.
  • Shirou made the final punk collapse after appearing behind him and shoving him.
  • Enjou stared at Shirou in terror, and Shirou showed him the anesthetic needle taped to his palm.

Ch. 43The Killer

Shirou and Shiki took Enjou Tomoe in after he asked them to hide him, and Shirou explained that Tomoe’s recurring nightmare might connect him to another timeline. Tomoe asked Shirou what he felt when killing someone, leaving Shirou poised to answer.

  • Shiki arrived and asked whether Enjou Tomoe was Shirou’s older brother, and Shirou denied it.
  • Tomoe insisted he had killed someone, so Shirou demonstrated his own ability to survive removing his eye and described the many people he had killed.
  • Shirou and Shiki agreed to shelter Tomoe, and he chose the Emiya Residence.
  • Shirou brought Tomoe porridge after he woke from his recurring nightmare and suggested that it might reflect events in a parallel timeline.
  • Tomoe asked Shirou what he thought and felt when he killed someone.

Ch. 44Emily's Justice

Shirou learned that Souren Araya had abducted Shiki and prepared to rescue her, while Mikiya took Enjou Tomoe to Touko Aozaki for help. Touko explained the danger of provoking Shirou when someone close to him was threatened, just as Shirou appeared at her workshop.

  • Shirou returned home to find Mikiya and Enjou Tomoe waiting, and realized Souren Araya had taken Shiki.
  • Enjou chose to keep living, so Shirou sent him with Mikiya to see Touko Aozaki about a better body.
  • Shirou said he would rescue Shiki and went to visit Touko Aozaki.
  • Touko made a small preservative item and told Mikiya to trust Shirou, warning that he became a monster when his loved ones were threatened.
  • Touko recalled that Shirou had destroyed the Sealed Designation enforcers who came after her, and Shirou suddenly appeared behind them.

Ch. 45Impervious to Blades and Bullets

Shirou stopped Arba from attacking Mikiya, and Touko Aozaki revealed how she survived Arba’s earlier attack before having her familiar swallow him. Souren Araya then appeared, and Shirou tested the claim that Araya’s left arm was impervious to blades and bullets.

  • Shirou appeared and prevented Arba from reaching Mikiya, then blocked Arba’s attempt to escape.
  • Touko Aozaki arrived alive, explaining that Arba had killed an identical doll of her instead of her original self.
  • Touko Aozaki released her familiar, which swallowed Arba alive.
  • Souren Araya emerged from the wall, and Touko Aozaki declined to fight him inside the building.
  • Shirou fired a Barrett at Souren Araya’s left hand, confirming that the arm was unharmed by the armor-piercing round.

Ch. 46God-Slaying Origin

Shirou reinforced Ogawa Apartment as Enjou Tomoe’s use of Kuji Kanetsune damaged Souren Araya’s barrier, leaving Araya badly wounded. Shiki escaped and confronted Araya, cutting off his right hand with Kanetsune and her Mystic Eyes of Death Perception.

  • Souren Araya withdrew into the wall, and Shirou told Mikiya to trust Shiki while Touko Aozaki mocked Shirou’s “God-Slaying Origin” nickname for her.
  • Ogawa Apartment began shaking as Enjou Tomoe’s plan took effect, and Shirou used Reinforcement magecraft to hold the building together.
  • Souren Araya emerged badly injured because Kuji Kanetsune had damaged the barrier linked to him.
  • Shiki stepped out of the elevator and advanced on Araya, who tried to restrain her with Bind.
  • Shiki used Kanetsune to destroy Araya’s barriers, then cut off his right hand with a single strike.

Ch. 47Bungee Jumping

Shiki fought Souren Araya, who fled by jumping from the twentieth floor, but she followed and stabbed him before the fall knocked her unconscious. After Souren Araya died, Shirou left Touko Aozaki and Mikiya when he spotted someone nearby.

  • Shiki repeatedly attacked Souren Araya, overcoming his attempts to suppress her with his invulnerability-granting left hand.
  • Souren Araya jumped from the twentieth floor and tried to bring down the reinforced building, but Shirou’s reinforcements stopped him.
  • Shiki leapt after Souren Araya and stabbed his abdomen with Kanesada; she survived the fall but was knocked unconscious, while he waited to die.
  • Touko Aozaki asked Souren Araya what he sought, and he answered that he wanted true wisdom and the end of the spiral before he died.
  • Shirou asked Touko Aozaki what she had meant earlier, but she told him to figure it out himself.
  • Shirou spotted the corner of a trench coat, told Touko Aozaki to stay with Mikiya, and vanished with Sonido.

Ch. 48Okita Souji

Okita Souji told Shirou that the Counter Force needed him to join a Holy Grail War in another timeline and stop Amakusa Shirou Tokisada from causing humanity’s extinction. Shirou agreed, and Okita immediately transported him away.

  • Shirou confronted Okita Souji in an alley and asked whether the Counter Force was targeting him.
  • Okita Souji explained that a timeline of the Holy Grail War in Fate/Apocrypha was at risk because the homunculus might lose to Amakusa Shirou Tokisada.
  • Okita Souji said the Counter Force wanted Shirou to join the war, and Shirou asked what compensation he would receive.
  • Okita Souji revealed that she was his reward, and Shirou agreed to take part so he could grow stronger and protect those around him.
  • Okita Souji called Shirou Master and transported him away before he could finish asking when they would leave.

Ch. 49Fate/Apocrypha Begins

Darnic and the Yggdmillennia Masters summoned five Servants for the Black faction, including Shirou and Okita Souji, instead of the expected four. The gathering ended with Astolfo questioning why the rational Shirou was classified as a Berserker.

  • The chapter recounted how Darnic Preston Yggdmillennia had taken the Greater Grail from Fuyuki during the Third Holy Grail War.
  • Darnic, Vlad III, and the Yggdmillennia Masters gathered in Trifas to summon their Servants.
  • Gordes, Selenike, Fiore, and Caules performed the summoning and called forth five Servants rather than four.
  • Darnic announced that Yggdmillennia already possessed the Greater Grail, while Shirou privately doubted his confidence.
  • After the lights came on, Astolfo noticed the extra Servants, and Shirou identified Okita Souji as an Alter Ego and himself as a Berserker.
  • Astolfo protested that Shirou was far too rational to be a Berserker.

Ch. 50Liberal Arts Berserker

Shirou explained his unusual Liberal Arts Berserker identity and revealed impressive parameters, while warning the others that sharing Servants’ true names could expose their weaknesses. Astolfo ignored his warning and began an exchange of identities, leaving Shirou pressured to reveal his own name.

  • Shirou called himself a Liberal Arts Berserker, prompting laughter and disbelief from the gathered Masters and Servants.
  • Caules inspected Shirou’s parameters and found that his Mana was EX and his Noble Phantasm was A+/EX.
  • Shirou explained that Caules himself had acted as the catalyst because Shirou had taught him in another worldline.
  • Astolfo proposed that the allied Servants exchange their true names, and Shirou warned that doing so could reveal their Noble Phantasms and weaknesses.
  • Astolfo revealed that he was Rider Astolfo, and Chiron identified himself as Archer Chiron.
  • Astolfo asked Shirou to reveal his true name.

Ch. 51Modern Magus

Shirou introduced himself to the other Masters and demonstrated his devastating Cero to Caules. Darnic recognized Shirou as a powerful modern-era trump card and warned that the enemy Masters should also be watched.

  • After Caules agreed to reveal their identities, Shirou introduced himself and described his willingness to use any means necessary.
  • Gordes refused to reveal Siegfried’s true name, and Shirou declined Astolfo’s request to disclose it.
  • Shirou projected a copy of Siegfried’s sword, prompting Chiron to recognize that his Projection Magecraft likely had restrictions.
  • Caules asked Shirou to demonstrate his strength, and Shirou’s Cero blasted apart powerful golems.
  • Darnic judged Shirou’s attack comparable to a weak Anti-Army Noble Phantasm and resolved to watch the enemy Masters as well as their Servants.

Ch. 52Night Falls

Shirou ambushed Mordred and Kaijiri Shishigami as they entered Touletifas, then fought Mordred in his first battle against a Heroic Spirit. Their clash continued fiercely, with neither fighter backing down.

  • Shirou sensed two souls entering Touletifas and used Resonance Turn to approach them.
  • Mordred bragged to Kaijiri Shishigami about defeating the city's patrolling Golems and homunculi.
  • Shirou fired a Cero-enhanced shot at Mordred and Kaijiri Shishigami, but Mordred dodged and sent her Master to hide.
  • Mordred charged Shirou with Clarent, but he evaded her strike and knocked her back with his Zanpakuto.
  • Shirou and Mordred exchanged blows, clashing their swords amid crimson lightning and Cero as their battle damaged the ground.

Ch. 53On Mordred

Shirou fought the Red Faction Saber, recognized her as Mordred, and warned Caules that she likely wielded an Anti-Army Noble Phantasm. Mordred retreated rather than use it near civilians, while Shirou set off to investigate another discovery.

  • Mordred intensified her attack on Shirou but decided to retreat after learning his side had a Master watching.
  • Mordred vanished, and Shirou told Caules that the Red Faction Saber was likely Mordred and possessed an Anti-Army Noble Phantasm.
  • Shirou and Caules discussed the female identities of Mordred, King Arthur, and other famous figures before Shirou mentioned finding something interesting.
  • Caules reported Shirou's identification of Mordred to Fiore, Vlad III, and Darnic, who accepted the information as reliable.

Ch. 54Because He Was Handsome

Jeanne, the Ruler of the Holy Grail War, encountered Karna on a highway outside Touletifas, where he attacked her under orders from his Master. Shirou interrupted to photograph Karna, but when Karna threatened him, Shirou realized he had to face the powerful Lancer himself.

  • Jeanne got out of a truck after warning its driver to leave the dangerous area.
  • Karna revealed himself and attacked Jeanne, who dodged his strike and changed into her battle attire.
  • Shirou appeared with Ulquiorra and repeatedly photographed Karna, then took a picture of Jeanne.
  • Karna said his Master had ordered him to prioritize killing Black Faction Servants and prepared to attack Shirou.
  • Shirou called Ulquiorra back as a Zanpakuto and readied himself to fight Karna alone.

Ch. 55VS Karna

Shirou fought Karna despite knowing he could not defeat him, hoping to survive until dawn, while Ruler refused to interfere. After Karna severed Shirou’s arm and sent him crashing into a hill, Siegfried joined the battle, and Shirou returned to help him face Karna together.

  • Shirou confirmed that Ruler would not intervene, then attacked Karna with Ceros and tried to keep him at a distance.
  • Karna saw through Shirou’s plan to rely on Ruler as an excuse for losing, and the two exchanged attacks until Karna severed Shirou’s arm and kicked him into a hill.
  • Siegfried ambushed Karna, but Karna blocked his strike and prepared to fight him.
  • Gordes found Shirou’s severed arm and ordered Siegfried to attack Karna.
  • Shirou returned with Ceros and Void Bullets, then joined Siegfried to make the fight a two-on-one.

Ch. 56Borrowing You a Room

Shirou, Siegfried, and Karna fought a destructive battle that ended when daylight forced Karna to withdraw. Afterward, Shirou gave Jeanne keys to a base in Fattolis, leaving her to realize her belongings had been destroyed in the blast.

  • Karna announced he would fight seriously, and Shirou and Siegfried joined him in battle.
  • Karna unleashed powerful Flame Projectiles that flattened the mountain range, while Shirou moved Gordes to safety and Jeanne protected him with her Noble Phantasm.
  • Siegfried and Karna exchanged respectful words after surviving the attack, and Karna withdrew as the sun rose.
  • Gordes complained that the enemy had escaped, but Shirou explained Karna's strength and turned to speak with Jeanne.
  • Shirou gave Jeanne keys to a base in Fattolis, and Jeanne realized the battle had destroyed all her luggage.

Ch. 57Coach, I Want to Learn Swordsmanship

Shirou reported on his battles with the Red Faction and warned the Black Faction not to underestimate its Servants. Afterward, he visited Okita Souji and asked her to teach him swordsmanship.

  • Shirou shared his vision of the battles with Vlad III and warned that the Red Faction might have other powerful Servants.
  • Vlad III praised Shirou's analysis, while Gordes privately worried about his encounter with Karna and considered apologizing to Saber.
  • Shirou visited Okita Souji and found her coughing up blood from her Weak Constitution.
  • Shirou cleaned up the blood and asked Okita Souji to teach him swordsmanship, and she agreed.

Ch. 58Shirou's Wish

Shirou trained with Okita Souji's sword techniques and told Caules that he intended to destroy the Heaven's Feel. He learned that Caules might use the Grail to save his sister and asked to examine the deformity in her Magic Circuits.

  • Shirou practiced the sword techniques Okita Souji had taught him, preparing for the Red Faction's attack that night.
  • Caules approached Shirou to learn about his background and wishes, and Shirou agreed to answer.
  • Shirou told Caules that he planned to destroy the Heaven's Feel because it was an incomplete Third Magic that could threaten the world.
  • Caules said he still hoped to reach the Root but might use the Grail to revive his sister if she died.
  • Shirou asked Caules about his sister's paralyzed legs and requested to examine her Magic Circuits, and Caules agreed to ask her.

Ch. 59Ideals and Reality, Two Sides of the Same Coin

Shirou examined Fiore’s legs and apologized because he knew how to treat her but could not help while she remained committed to being a magus. Fiore and Chiron shared their wishes for the Greater Grail, leaving the group reflecting on the bonds behind those desires.

  • Shirou asked Fiore whether she intended to give up being a magus, then apologized because he could not treat her legs while she kept her Magic Circuits.
  • Fiore said she wanted the Greater Grail to heal her legs so she could stand and continue as a magus, and Shirou insisted that no wish was too small or selfish.
  • Chiron revealed that he wished to reclaim the immortality he had surrendered, explaining that it represented his bond with his parents.
  • Shirou told Chiron he had no right to judge his wish and admitted that he also wanted to learn the identities of his true parents.

Ch. 60A Story About a Loser

After failing his college entrance exam, a nineteen-year-old man drunkenly saw the girl who had dumped him in the path of a speeding truck and sacrificed himself to save her. As he lay dying, she reached his side and asked why he had rescued her.

  • The nameless man reflected on his failed relationships and narrowly missing his chosen university by two points.
  • On his birthday, he drank for the first time, stumbled into a pothole, and spotted the girl who had dumped him near a speeding truck.
  • The man rushed over and shoved the girl out of the truck’s path, but the truck struck him and left him mortally wounded.
  • The girl crawled to the man’s side and tried to call an ambulance, but he told her he could not be saved.
  • The man said his body had moved on its own when she asked why he saved her, then thought that he had not been such a loser after all.
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