Plot hole: After the nuclear missile has overshot the ship and is determined to be heading for land, a map on a computer display gives an indication of the missile's trajectory relative to the Nathan James and western Europe. After the nuclear detonation, an external shot shows the blast is to the port side of the ship, giving the impression the ship is on a southern bearing off the west coast of France. At the time of detonation, the bridge crew shield their eyes while facing the front of the bridge, which would give the impression the ship is pointed right at the blast rather than off the port side. Later, Master Chief Jeter reports that the jet stream is pushing the radiation north-northeast, as if to indicate the ship is currently sitting in the fallout zone, when this would actually be pushing the radiation cloud away from the Nathan James.
Plot hole: The grounder's leader Anya states that the missiles (flares) burned a village to the ground. If this were true, the flares couldn't have flown very far, otherwise that village would have been too far away for the grounders to know about. In a previous episode, when you saw the flares from space, it was obvious the flares traveled hundreds if not thousands of miles away. (00:31:30)
Revenge of the Rogues - S1-E10
Plot hole: During the fight at sundown, Cold gets a hit on Flash and he goes down. Eddie takes a shield and goes to help. But Flash was in the middle of the street with no obstacles around, and it's implausible that Eddie could have gotten to him without Cold or Heat seeing him.
Plot hole: To identify the owner of a severed leg, Pride asks Loretta if she can guesstimate the body's general build by the foot's boot size. A much simpler way would be to swab for blood where the leg was severed and run it through the military DNA database.
Plot hole: They need at least 12 magnets to make it work, Paige collected 11. (00:21:00 - 00:22:00)
Plot hole: Ezra escapes from the Ghost crew through the ship's ducts. When the ship comes under attack from TIE fighters, he eventually falls out and into the nose gun turret. However, that turret is directly connected to the cockpit. There is no duct where he fell for him to fall out of.
Plot hole: After Jack's wife disappears for a couple of days, he receives a call from her cell phone from the cab driver who found it. Jack arranges to pick it up from a hotel. After he picks up the phone, its battery dies as he checks it, at 12:13pm. In the next scene with Jack, he's in a bar with the phone plugged into a charger; when it comes on, he checks it - the battery shows 3%, but the time is 9:13pm. He apparently wasted 9 hours when he's in pursuit of his wife's mysterious disappearance before plugging in the phone. A scene later, the time is now just a minute later at 9:14pm but the battery is now charged to 79%. (00:37:25 - 00:40:45)
Plot hole: A major plot device is Harry's fingerprints on a whisky glass at the murder scene. We see the glass being taken after he drinks from it at a bar. Why are there only his prints on it and not the bar staffs'? And why does no-one wonder why the victims prints aren't on it as well? If they think it is an attempt to frame him, why do they not even check if it matches any other glasses in the apartment or is an odd one out?
The Alchemy Murder Case File 4 - S1-E9
Plot hole: The ending is funny, but it does not make sense, since as it was mentioned in the first episode, there was literally 1 ton of metal to remove, and it was in the shape of a door. Not only it would have needed 32 trips (as the nerd girl says in the first episode) from the secluded house to a large boat they somehow needed to have standing by and was undetected when the island was searched earlier, but they also needed to dismantle the door, since that's what the gold was turned into.
Plot hole: The nuclear explosion is on Liberty Island, a small yield, but nonetheless big enough to move an enormous amount of water towards the coasts on all sides. When we see Sertrakian and the others at the harbor no water is heading their way - they should be washed away by it. (00:37:30 - 00:38:45)