Other mistake: Murphy lands the helicopter on a railway line so an oncoming train will destroy it completely, and this happens exactly on cue with huge, dramatic explosions and flying debris. Apparently the train driver doesn't think this is important enough to interrupt his busy schedule - he doesn't stop the train. We do not hear brakes being applied - the wheels would make a noise like the sky coming down - and the train doesn't slow down at all - it just keeps on going.
Plot hole: Apart from the impressive pyrotechnics, what is the point of destroying the Blue Thunder helicopter? By far the most expensive, time consuming and technically complex part of producing any aircraft is the design and development phase - once the prototype is in the air production is relatively straightforward. The bad guys can make new Blue Thunders any time they like, and Murphy has destroyed the only evidence he has that there was a criminal conspiracy behind the whole programme - the 'videotape' he has of blurry, false coloured characters will convince nobody. Without the helicopter to back him up that tape is of no value to him.
Trivia: The registration number N77GH is visible on a gold placard on right surveillance camera' but only civilian aircraft are given November numbers. Military helicopters only have a series of numbers like on the tail. You aren't supposed to notice Blue Thunder's real "N" number, but it is there throughout the movie making it known it was truly a civilian helicopter.
Frank Murphy: That's Cochrane, F.E., US Army.
Lymangood: Cochrane, F.E. What's the "F.E." stand for?
Frank Murphy: "Fuck Everybody."
Lymangood: This sucker will do everything but cook your breakfast.
Col. F.E. Cochrane: You threatening me, Murphy?
Frank Murphy: No, I'm telling you. Back off.
Question: Near the end, Cochrane wants to kill Murphy. Why do it in the air? Even if Cochrane did wipe him out, the only way he would have to do that was to destroy the helicopter completely when he had the chance; instead, he injured Murphy and disabled the cannon somewhat, which is painful to watch and understandable, for fear of collatoral damage or simply because he did not want to blast it out of the sky and foot the bill. But the helicopter costs '$5 million', and even if Cochrane had the money, it would have been cheaper to take Murphy out on land instead of in public and in broad daylight.
Question: Just a question and an observation: When does Lymangood find out what JAFO means? He didn't know when he got into Blue Thunder for the first (and last) time: "When are you going to tell me what JAFO means?" 1. They find out about the evil plot. 2. Lymangood gets the tape after they land. 3. He leaves a recording for Frank inside Blue Thunder using "Big Brother", the cabin recorder. 4. He drops the tape off at a drive-in movie dumpster. 5. He calls and leave a voice-mail for Murphy. 6. He goes home and is attacked. So when was he told what JAFO means? Also, someone had a sense of humor about naming the Special helicopter. It was to be used in project THOR (Tactical Helicopter Offensive Response, the "proposed use of military helicopters to quell disorder"). Thor is the god of thunder in Norse mythology. Did they name the helicopter Blue "Thunder" because it was going to be used in Project THOR? It would have been nice to connect the two references in the movie.
Question: Why didn't Murphy tell his boss about Cochrane's plan to kill him? He tries to when he gets back, but notices some strange behaviour and walks off. Is it because he (a) doesn't trust the department and thinks the boss is in on it (b) doesn't think he will believe him (since Lymangood hid the proof) (c) decides to deal with it himself (d) just the writers' way of advancing the plot.
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