Continuity mistake: In the unfortunate outcome of the encounter with Zapan in the alley, Tanji lies on the floor in two completely different ways. (01:27:20)
Continuity mistake: During the game, Alita disposes of the black cyborg guy with the yellow paint, the same one she met at Kansas. She rips his arm off and uses it to spike the head of the colossal dude with the morning star-like weapon. You could see as the arm was being ripped, that debris and a big metallic piece of scrap were left behind. However, when the 2 next opponents are skating towards Alita making her take off fast, there is no such trace of debris beside the whole body of the guy. (01:33:00)
Continuity mistake: Hugo is running away from Zapan; after the sequence of Alita's busted pipe we see him jump over a parapet onto a street underneath, rolling just past an incoming utility vehicle. In the overhead shot he lands right in front of a group of people including a rather conspicuous man with a pink shirt, but in the following shot almost everyone in the street is gone. (01:34:40)
Continuity mistake: The position of Alita's hands on Hugo's face changes between shots a few times as she holds him in the church. (01:38:55 - 01:39:40)
Continuity mistake: The hair on the severed head under Alita's arm changes arrangement between shots. (01:41:00)
Plot hole: Grewishka sneak-attacks Alita using his weapon from outside the window. How in the world was the hulking behemoth just standing outside the window without Alita noticing? He surely couldn't have tiptoed into that spot after she arrived, he makes a ruckus for every step he takes. (01:47:10)
Continuity mistake: When Alita is playing the street version of motor ball she knocks over Tanji. In the next shot Tanji is following her in the pack as she scores, then the shot switches back to him on the ground.
Character mistake: In her first walk through the city with Dr. Ido, after feeding the dog her sandwich, Alita takes a flyer and reads it. Between the lines that read "Wanted" and "Murder" there is a line in Spanish that says "Querido para el asesinato." It should say "Querido por el asesinato".
Factual error: When Zapan speaks while his face is chopped off, the producers have failed to take into account the importance of mouth and tongue in producing speech. As a cyborg, Zapan could use speakers to produce a voice, but he isn't.
Factual error: Grewishka consistently survives falling several stories down. He is twice the size of a normal human. Assuming that he maintains the same density (weight to volume ratio), the fall must still be 8 times (2×2×2 times) harder. A scientific breakthrough that reduces density is perhaps not far-fetched in a work of sci-fi. But here, Grewishka's demonstration of brute force suggests that he actually has higher density, not lower.
Continuity mistake: In Alita's speech inside the Kansas bar, at first she does not have her Hunter Warrior ID in her hand. After the camera angle change it's in her left hand and then her hand is empty once more after the next camera angle change.
Continuity mistake: During the battle with Grewishka in the alley, the brute punches a hole in the asphalt and one into the tiles and concrete wall. However, after Alita axe kicks him from above and slides behind him to grab Ido's weapon, there are good views of the alley and no trace of the damage is present.