Plot hole: Nile checks the gun Andy gave her and realises it's empty, which in turn leads her to realise that Booker was setting them up, because he gave that gun to Andy in the first place. No way that Nile, a marine, and Andy, a timeless warrior, somehow both missed the noticeable difference in weight between a fully loaded pistol and an empty one.
Plot hole: There is no reason at all why, being targeted by a few arrows by unseen enemies - a fire suppressed already by the salvo of their own archers - the Rourans would turn around their heavy siege equipment, away from the bulk of the enemy forces, and fire it, hurling a single heavy stone to the middle of nowhere when they have the whole rest of the army who could storm the rock the supposed enemy commandos hide behind, or the archers who could keep shooting - again, they proved to be completely successful. It also makes no sense that the all-powerful witch who made the warriors flee managed to do any of this, 'sneaking' by horse in the middle of the steppe.
Plot hole: Enola and Tewkesbury make an unpremeditated decision to visit the Basilwether estate. This decision was made on the spur of the moment, and no-one knew about it. but when they arrive, Linthorn, who is supposed to be in London looking for Tewkesbury, is waiting in ambush to kill them. (01:32:45 - 01:34:31)
Plot hole: The whole premise of the movie is that history would write off the existence of the Ghostbusters after the events of the first movie. In that movie there was prolonged large scale destruction in the heart of a city with millions of inhabitants. It's simply impossible that people would forget or dismiss it. And that's if we do not even begin to assume that the second one happened, even if the director said it did; nothing in his movie shows that, and for a good reason (Statue of Liberty, anyone?).
Plot hole: The girl disappeared from the RV. The RV is a crime scene - it should have been taped off, finger printed, and searched for trace evidence with luminol and a forensic light source. There is no crime scene (forensic) unit present on the scene. However, the parents are sitting in the RV waiting for the cops to contact them about their missing child. (00:19:00 - 00:20:00)
Plot hole: After the incident in Chemistry class, Adam was taken to the hospital where he was diagnosed with schizophrenia. Next, Adam found out that he was expelled from school. What happened during Chemistry class was attributed to Adam's "first psychotic break" - which would fall under a medical condition for which Adam could not have prevented or controlled. The Department Of Education has laws protecting students like Adam (Individuals with Disabilities Education Act or IDEA, enacted in 1975), and the school is required to meet the child's / student's needs. An Individual Education Program (IEP) should have been prepared for Adam by his school, so the expulsion served to further the plot. (00:06:00 - 00:06:30)
Plot hole: At the end, everyone was returned to their own timeline. Except for Ted's dad. He's shown still playing till the end and not disappearing like the others. However, this version of Ted's dad came from the future when he attempted to arrest his son at David Grohl's house. Therefore, he should have disappeared with the others and returned to his future timeline.