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- "To answer the question on everyone's mind, no, I'm not crazy. I know in the past few months, it may have seemed like I was leading you on some fool's errand, chasing after strange craftings and artifacts. At times, I questioned myself, wondering if I was chasing windmills, trying to solve some unsolvable puzzle. But the pieces are coming together. The puzzle's taking shape. The bad news is, HYDRA's trying to solve the same puzzle, and they have more resources. The good news is, we now have a piece they don't have. Everything we've been doing, it all leads here. Our job: find it before everyone else."
- ―Phil Coulson
The Search for the Kree City were the events building to the Battle for the Kree City as S.H.I.E.L.D. raced HYDRA to find the Kree City first, whilst Grant Ward, Raina and Calvin Zabo formed temporary alliances and deceptions with each side to achieve their own ends.
Project T.A.H.I.T.I. patient Sebastian Derik attacked fellow patient Hank Thompson to learn more about the alien writing. Phil Coulson arrived, saved Thompson, and discovered that the alien writing was actually a 3D map of a city.
Coulson's team needed to get to a satellite station to search for any sign of a city like that on the Earth. He realized the easiest satellite station to infiltrate would be Laura Creek Station but Kaena Point Air Force Base had to be disabled first. Coulson planted an Electromagnetic Pulse device, causing a blackout at the entire base for six minutes and activating Laura Creek.
Whitehall, after searching for the secrets concerning the Obelisk for almost seventy years, was told by Calvin Zabo that the artifact was of Kree origin and meant to "divine" the worthy so they could enter a temple. Zabo went to Laura Creek to hijack the satellite network.
When Phil Coulson's team arrived at Laura Creek Station, they were attacked by HYDRA soldiers. Leo Fitz untied the station's crew and locked them in a secure room. Fitz began the hack and Antoine Triplett covered his back as two soldiers entered. Triplett killed the first but was shot in the shoulder by the second soldier before he was shot by Coulson. As they tried to help Triplett, Calvin Zabo arrived and offered his help, telling them that he was a doctor.
As Zabo seemingly performed first aid, he actually slit Triplett's artery, using his life as blackmail, because it would allow him time to escape the scene while Coulson and Fitz helped Triplett after their conversation about Skye was finished. When he had gotten what he wanted, he gave them a clotting agent to save Triplett from bleeding to death. Zabo escaped from the station. Fitz finished the hack and helped Coulson get Triplett back to the Bus.
On returning to the rest of the team, conversations started about Skye's father, but everyone forgot about it when the satellites suddenly popped up saying they had found a match for the city somewhere in the world. Zabo returned to Daniel Whitehall and was surprised to find that Grant Ward was there too, promising to work for Whitehall.
The next day, Raina and her boyfriend Chad were in a coffee shop in Vancouver. Raina spotted Melinda May and approached her but it was actually Agent 33, who told her Daniel Whitehall would like to speak to her. Raina ran out the door and down the street. She passed Agent Billy Koenig who told her to take a right at the corner where his brother Sam Koenig was waiting. Sam told Raina to come close to him and used a Cloaking Umbrella to conceal them from HYDRA agents.
The Koenigs took Raina to a S.H.I.E.L.D. Safe House and contacted Phil Coulson, who sent May, Skye and Lance Hunter to extract them. May and Hunter took out several HYDRA agents searching the area and Skye headed to the safe house to collect Raina. As they were leaving, Agent 33 attacked Skye. Skye ordered Billy Koenig to take Raina and head for the stairs while she engaged Agent 33. Skye disarmed her and threw her through the door of the safe house. Skye restrained Agent 33 and offered to help her but Agent 33 broke free, knocked Skye to the ground and grabbed her gun. She took aim at Skye but was tackled to the ground and knocked out by Hunter. However, when Raina found out that Whitehall had the Diviner, she tried to hand herself over to HYDRA, but the rest of Coulson's team prevented her, and they all returned to the Bus.
Phil Coulson and Bobbi Morse entered San Juan, and met up with Morse's tour guide contact Diego, who gave them plans to the Castillo San Cristóbal. When they entered the garrison, they called in Leo Fitz, Jemma Simmons and Alphonso Mackenzie to come to the site as they realized the city was underground. Mackenzie used the Mouse Hole to cut a hole in the floor and Fitz sent his D.W.A.R.F.s down a tunnel to find out what was down there, but the controls failed. Since technological methods did not seem to work, Mackenzie volunteered to descend into the city to see it for himself, but when he touched a Kree symbol on the floor, he lost control of his body.
When the team brought him back up, he attacked them all ruthlessly with no sign of his normal personality inside as an end result of the painful transformation he went through mentally and physiologically. Coulson tried to shoot him, but he seemed to be immune to I.C.E.R. bullets, and was only defeated when Morse electrocuted him with her staves and he fell down the tunnel. It was unclear to the team whether or not he survived the drop.
Attack on the Bus
Agent 33 reported to Daniel Whitehall that Raina mentioned S.H.I.E.L.D. implanted her with a tracker. Grant Ward recognized the old S.H.I.E.L.D. frequency, tracked the Bus, and led HYDRA to the plane until they had it surrounded by Quinjets. Ward boarded the Bus and promised not to attack so long as he can take Skye and Raina with him. Reluctantly, S.H.I.E.L.D. handed over them over, along with the maps of the city, evening the odds between S.H.I.E.L.D and HYDRA, since both sides now knew the location of the Kree City.
Whitehall received the news that Ward did not destroy the Bus, and ordered the strike team to do it himself. Agent Melinda May was suspicious of their intentions, and ran directly to the cockpit. She used multiple maneuvers to lead them down into cloud cover, and released countermeasures as they went into cloaking mode to escape the HYDRA Quinjets. The jets registered the attack as successful, believing they had hit the Bus with four direct hits.
Melinda May, though regretful that she had allowed Grant Ward to take Skye and Raina, coordinated with Phil Coulson in San Juan and told him about what happened. Coulson assured her that she did the right thing.
Coulson prepared his agents for the Battle for the Kree City. Meanwhile, he gave the Koenig brothers orders to have Theta Protocol ready if HYDRA won. Daniel Whitehall was killed by Coulson. Raina took the Diviner into the Kree City and Skye and Antoine Triplett followed her to the temple. In the temple, the Diviner opened to reveal the Terrigen Crystals as a mist filled the room. Raina and Skye were transformed into Inhumans and Triplett was killed.
While retrieving the body of Triplett from the Kree City, Jemma Simmons encountered Raina who, in her new form, killed many agents; Simmons was unsuccessful in capturing her, though she shot Raina multiple times. Simmons then had her team destroy the city without harming San Juan above.