Revealing mistake: Intro Mission 2: Lots of the destructible objects in the hospital can be broken simply by just jumping on them. Some of these objects are large plant pots with a small green tree in them. When you jump at them, the foot only has to just touch a leaf of the plant, and it causes the whole vase to shatter.
Other mistake: Intro Mission 2: When the flying torsos of the security bots go to the pods to connect with arms and legs, they go in and turn around as their limbs begin connecting. The metal tentacles on them just instantly vanish in a jerky animation.
Continuity mistake: Intro Mission 1: During the opening cut scene, Ben is about to go out an air lock to go close the Adamantium shields on the space station. When the level starts, Ben is in the same air lock, only now the door is much larger.
Continuity mistake: Intro Mission 1: At the end of the level, you go to the edge of part of the space station that was just destroyed, and you hear Reed yell to Ben he has to jump. You go to the edge and instantly a cut scene starts. When it does, there is now a weird looking sensor array or something on the deck right behind him, that was not there as you moved him to that spot. The 'ground' or part of the station Ben was on also significantly changes from game to cut scene.
Continuity mistake: Intro Mission 1: During the opening cinematic, Ben is in his space suit and daydreaming about how they got there. When Reed speaks to him to snap him out of it, he is facing out of the air lock. You can see a reflection of the space station parts on his visor. But when the camera angle cuts to his back, what is in front of him is nothing like what is reflected on his visor.
Other mistake: Intro Mission 1: In the opening cinema cut scene as Doom tells Ben that their futures are all depending on him, Reed is in the background typing on a computer. He begins putting his right arm down towards his side with a bent elbow. Half way down his arm suddenly jumps to being almost all the way down in a jerky, glitchy animation.
Bug: Intro Mission 1: If you take Ben off the space station, Reed starts shouting at him to stay on course. If you go off too far, it is game over. Hit the restart option and then press A to skip the cinema cut to return to the level. As soon as the level begins and you hear Ben begin to breathe, hit the pause button. This leads you into the pause menu, and this is where the glitch happens. You will hear Ben inhale sharply during the menu, despite you not being able to hear him when paused, and he sounds almost like Darth Vader. But before his breath is finished, you hear part of Reed's rant play, where he is just yelling the word "Course!" This plays rapidly on a loop of hearing Ben breathe once, followed by Reed yelling "Course" over and over again until you unpause it. The glitch ends after that.
Other mistake: Intro Mission 1: Once the characters get their powers, pressing Z uses up their "Cosmic." Cosmic is the blue bar underneath the green health bar. On Mission 1 of the Intro level, it is before the cosmic cloud hits the station, thus none of them have any powers or cosmic yet. However, you are controlling Ben in a space suit out on the space station, and he has a blue bar of cosmic below his health. If you hold down Z, you see the Cosmic begin dropping from 100 and the blue bar move.
Other mistake: Brooklyn Missions 1&2: When a fire escape is broken and collapses to the ground, it kills any enemies on or under it, and hurts any of the Fantastic 4 in its path unless they, like Ben, bring it down. Yet any civilian walking by, even being right under it when it falls, is completely unscathed.
Plot hole: Brooklyn Mission 2: After Reed and Sue confront Ben, he smashes down a fence and takes off. Only on the other side of the fence are 3 members of the Yancy Street Gang. The fence even hits these three guys and Ben runs between them. Yet, despite the fact in the previous mission, Ben took out many of their fellow gang members, including their leader, they act like they don't even see Ben. They ignore him completely as he hits them with the fence and plows between then. And then they charge at Reed and Sue to attack, and they have never even seen Reed or Sue before, nor has any of their gang.
Plot hole: In the film, it is shown that Ben is the only one knocked out by the cosmic storm, with the others conscious to get them back to Earth safely. However, in the game, things are changed so all four of them and Doom are knocked out and wake up in the hospital. They were the only five people on the station and were knocked out there, with Ben in the airlock. There would have been nobody to get them on the shuttle and take them back to Earth for a rescue. In the film, only Ben got knocked out, but by changing it in the game version, it opens up a plot hole about how they made it back to Earth safely after all being knocked out and then waking up in a hospital.
Factual error: Intro Mission 1: Opening Cinematic: When the character intro cards display the team's information, the formatting is awkwardly worded as if it were "official" text. For example, Reed's card lists "with no criminal record" and "Former Aliases: None," which is not how real-world records are normally phrased. Official documents would instead use clearer labels such as "Criminal Record: None" or "Aliases: None." The phrasing makes the supposedly professional cards look sloppy and unprofessional.
Other mistake: Intro Mission 1: In the opening cinematic, after Reed says the cosmic cloud is speeding up, there's a shot of him having his hands out typing on a computer interface screen, with him oriented at it with his right hand on the right side and left on the left side. But there's a strange animation glitch where he reaches forward with his left hand; it goes past the right side of the screen and we hear typing before he pulls it back and then types with his right hand on the screen. Like his left hand clipped through the right side of the screen, coming into the foreground.
Character mistake: Intro Mission 1: In the opening cinematic, each character is introduced and an information card is shown for each one. In Sue's title card, it says "Director of Genetic Research, Von Doom Industries." However, there should be a comma between "Research" and "Von Doom Industries." Also, where it lists her as "PC1: Scientific," it has a colon between the rank, whereas all the other cards have a dash "-" between the rank and designation, making hers inconsistent.
Audio problem: Intro Mission 1: During the opening cinematic, Sue radios to Ben that they need his help on the roof. It cuts to showing Ben inside the machine that took away his powers and we hear him say, "Susie I'm coming." It then cuts inside the machine with him looking at himself in the mirror. In his reflection, we see his mouth move, apparently saying the "Susie I'm coming" line, but with no sound at that point, before he says, "I've got a problem here." It appears that they animated him saying the line, but then moved the audio forward a few seconds to play from outside the machine and didn't fix his lip animation.
Continuity mistake: Intro Mission 1: Opening Cutscene: Right at the start, they are walking up on an apparent unconscious Dr. Doom, and Johnny asks if he's dead. After Sue says "how, why?" it cuts to a close-up of the three of them walking, but Reed stops Johnny and holds his hand back. He then starts to walk forward again, getting ahead of Johnny and Sue, with them a few feet behind him. Then, when the camera cuts to a wide angle by Doom, the three of them are side by side once more, with Reed not ahead.
