Plot hole: Necros had absolutely no way of knowing that Bond and Saunders had arranged to meet at the cafe when they did, and wouldn't have had anywhere near enough time to track them down and set up his elaborate booby trap. Saunders only suggested the meeting place and time a few hours earlier, and it was kept strictly between him and Bond. The scene in Tangier where Whittaker tells Necros to kill another British agent takes place on the same day Bond arrived in Vienna; meaning that Necros got from Tangier to Vienna (a 5 hour-plus flight), tracked down Saunders, acquired the materials to booby trap the cafe doors (or had planned this ahead of time - unlikely) and set the trap up well in advance of he and Bond getting to the fairground. There was nowhere near enough time for all of that to happen without Necros having psychic knowledge of Saunders' movements.
Plot hole: Superman traps the supervillain (whose power depends on sunlight) inside of an elevator to incapacitate him. Superman then ripped the elevator out of the building. He then plants it on the far side of the moon. Later on, sunlight starts to shine into the elevator through a slit at where the doors meet. The villain of course recharges and comes after Superman again. Now, if light could get through that crack there, then why couldn't it get through when the elevator was ripped out of the building in BROAD DAYLIGHT?
Plot hole: Although it is explained how the chipmunks were able to get away with the balloon race by tricking Ms. Miller, wouldn't Ms. Miller know that the chipettes were in on the balloon race? Especially considering the fact that she is their guardian? Also, why would she offer to babysit the chipmunks if she has chipettes to look after herself? Despite this, the chipettes were never brought along to Dave's house with Ms. Miller. And what is Ms. Miller still doing in Dave's house if she thinks the chipmunks are with Dave? Unless maybe she's taking care of the house...
Plot hole: In the scene where Westley is tortured to extremity, he screams, and upon hearing him scream, Inigo is instantly able to identify Westley and that he is in love with someone about to marry. You could say Fezzik told him, but how did Fezzik know? For all they knew, he was just a pirate after a prize.
Plot hole: When Gwildor tells Julie and Kevin that he can use the Cosmic Key to take them to any point in time they wish, Kevin asks just for them to go straight home. As Kevin and Julie go through the portal, Julie turns around and shouts to Gwildor to send them back before being dragged through the portal completely. When Julie wakes up in bed, she discovers that Gwildor has sent her back to the day her parents were killed. Julie never said where in time she wanted to go, so there's no way Gwildor could know to send her back to the day her parents died.
Plot hole: After being hit with the spores, Cobra Commander cannot walk or even move very well with any speed at all. The Cobra minions have to drag him to their prison with the Joes and just leave him there on the ground after the Joes make a break for it. The Joes go quite a distance to engage Cobra. Road Block is delayed only a couple seconds behind the other Joes when he is grabbed, but knocks out the minion who grabbed him. Suddenly, Cobra Commander is at his feet telling him to wait because it's a trap. Later, Road Block has to carry Cobra Commander because he still can't move much. There's no way Cobra Commander could have caught up with Road Block to warn him of the trap. (00:52:50)
Plot hole: After the car burns, and they arrive at the motel, Neal only has $17.00 on him and nothing but melted credit cards, forcing him to give up his watch to help pay for the room. Del only has $2.00 but his watch doesn't quite flip the bill. At this point, between Neal and Del, they only have $2.00. However, when Neal invites Del into the room, so he doesn't freeze to death, they are eating Doritos and drinking shooters. Even in 1987 Doritos and a bunch of shooters must have cost more than $2.00. This is assuming Del didn't already have them in his trunk. But even if he did, at the end, Neal gets on his train, makes a return trip to find Del just where he thought he'd be, and then they'd both have to get back onto that train. After all, they both showed up at Neal's home. Once again, It would take money to get on that train. Four train fares with only $2.00. Neal's first trip, return trip, and Neal with Del for the last trip = four fares.