Plot hole: Simmons stands outside the 'The Monastery' at Petra (not to be confused with 'The Al Kazneh' at Petra where Indiana Jones and the Last Crusade was filmed) and looks at the horizon, and he is able to see the Air Force landing with Optimus by the pyramids. It then appears to take them mere minutes to drive over there. This is outright laughable, even accepting that they make the trip in an alien robot car. Petra and Cairo are separated by hundreds of miles of desert, not to mention Israel being between Egypt and Jordan.
Plot hole: In the scene where Ricky is fighting granny, she elbows Ricky in the neck and knocks off the alien control sensor. But later when he goes to the other girl's house, he is once again controlled by the alien joypad (without a sensor on his neck). (01:02:15 - 01:19:40)
Plot hole: Despite their awareness of the red matter and the power of the singularity, no one on the bridge had the common sense to suggest pulling back to a safe distance. Nero had already refused their assistance so there was no need to stay so close to the singularity. And when a black hole was created inside Vulcan, an officer mentioned they had to reach minimum safe distance, so they know what they need to do, but no-one does it. (01:00:30)
Plot hole: Ben demonstrates for the FBI that he has not only invented gear that allows animals to speak English, but trained ordinary rodents to a level on par with Navy Seals. The FBI laughs at him and cuts his funding, a plot hammer so G-Force can escape and save the day. Are they kidding!?! Even if the info G-force brought back is wrong, Ben has created agents that can repeatedly infiltrate almost literally any place on Earth. No government agency would pass up such a huge intelligence gathering tool.
Plot hole: After the scene at the Houses of Parliament where Irene Adler escapes through the sewer from the clutches of Lord Blackwood, she suddenly appears at Tower Bridge, about 3 miles away. Even assuming she ran there and the journey was skipped, going there makes zero sense. It slows her down, leaves her exposed and limits her exit points - she's got all of London to escape into! (01:48:00)
Plot hole: The super warriors that are given the venom are supposed to be fearless and without self preservation. However, during the scene in the Sahara base when they are helping to get the warheads back from the Joes, one of those men screams out in fear as he falls down the shaft, which makes no sense as the one guy did not scream in frustration when he was bitten earlier by the deadly snake and knew he would die. (00:40:20)
Plot hole: Muten sees Goku perform the technique his Grandpa used, and says "Shadow Crane Strike. I'd recognize that anywhere. How's Gohan?" A few scenes later he goes "Shadow Crane strike is the most basic of all the air-bending techniques." Which is it, Gohan's technique or a generic level 1 airbending spell? (00:30:55 - 00:34:50)
Plot hole: In the series we learn that these creatures take a lot longer than us humans to grow up and that they live a lot longer. They mention that the children are about 900 years old, so a grown-up would be more than 1000 (probably 2000). The series is set around our time (1990s/2000s) and Fjellrose and Erke are very old. Yet the film is set about 100 or 200 years ago, you can tell by the way the humans are dressed and the way their houses are built etc. So Fjellrose and Erke should still be grown up, but they are young children. If they are only 100 to 200 years younger, then they should be much older in the film or much younger in the series.
Plot hole: If the missing people were already in that cave, then why did they have to cut locks of the building and pry boards off the hole?
Plot hole: In the first film, the shape of the ring was a little different and it was set in a ring. Also, it was given to Xania. In the second film, she was never even acknowledged as donating it to the museum.