A paramilitary group who call themselves the ""Posse Magistratus"", have been the prime suspects for a series of bank robberies, and one particulary involving a heavily-modified World War II fighter plane. In order to track down this plane and stop the whole game, Chaney and Wonderlove attempt to track it down, based on various aerial police sightings. When accomplishing this, Chaney spots gun mounts on a plane that they performed an unauthorised thermograph upon, and results in not in the state of valid evidence to charge the Sheriff who owns it for the state-threatening operations. However that same day, the same World War II figher plane attacks them, and ends up being shot down by Chaney in Blue Thunder. To posess reliable and sufficent evidence to charge the ''Posse Magistrates'' of the crimes they have took out, Ski goes undercover as a mechanic, but it isn't long until Chaney and Wonderlove discover that the group plan to kill one of the cities' main councilmen at the Queen Mary s

An F-86 Sabre jet is stolen from an airfield by a group of KGB mercenaries, followed by an intense but unsuccessful chase by security personnel. The subsequent day, FBI agent Bruce Walsh informs Captain Braddock, Chaney and the Blue Thunder crew to participate immmediately in an in-depth search for the lost jet fighter, which with the proper treatment could be converted into a lethal weapon which could not be recovered by the government.

Chaney is dis-satisifed with Walsh not providing substantial information regarding the hi-jack but Walsh covers his own with the excuse of Apex having their full acceptance with the FBI on this case. Throughtout the assignment, Chaney soon starts to develop a very romantic and cosy relationship with Walsh's assistant, Kate Cunningham, who unforuntely later on is killed just before she arrives at Chaney's house and mumbles the words ""K.G.B."".

The search turns into an evenmore vengeful one, but when revealing the location of the Sabre jet, Blue Thunder i

The witness, also his confidental secretary, who could put her employer, corrupted financier Richard J. Lassiter behind solid steel bars is rescued by the Blue Thunder unit from an estate where her kidnappers were previously holding her hostage, until Lassiter's court-trial was finished. He has been sentenced for 25 years for fraud, extortion and imtimidation, and is scheduled to be transferred to Greenlake Penitentiary, a medium-security facility, located in the Central part of the state.

Complaining of a gut instinct that Lassister will have his associates prepared to rescue him from lifetime imprisonment while being transferred in a police motorcade, Braddock warns Chaney not to go anyway near the transportation, however he does so. If he hadn't, then Lassiter would have got away scot free, thanks to a truck parked in the middle of the routed road with heavy automatic weapons, which is blown away by Blue Thunder's 20mm 6-barrel Vulcan electric cannon.

Now in prison, Lassiter already

Madame Eva Parada, the president of Sumora, is inviting major U.S. business corporations to set-up branchs in her country, by signing lease agreements, however a small rebel group, who call themselves ""The Revolutionary Forces of Sumora"", are not tolerating this happening.

When providing ground and aerial security at the Sumoran Embassy, where a guest reception is underway, Blue Thunder is decoyed by an supposedly out-of-control civilian plane, while Bubba and Ski do not notice the ""gorgeous"" woman who offered them sky-diving lessons at an airshow, Gretchen Terrell, sky-diving herself discretely onto the Embassy premises and planting explosives around the perimeter. These do cause heavy damage, but do not scare away the major corporations and Madame Eva Parada from continuing their negotiations, even though The Revolutionary Forces gave them a highly threatening warning.

Although Captain Braddock is completely annoyed at how the ""most sophisticated surveillance unit in the world"" manag

Chaney's arch rival is given control of Blue Thunder after Chaney is reassigned for breaking off a drug stake out in order to pursue kidnappers

The Space Shuttle Argo, privately funded and arranged without any governmental interference, becomes under threat by a group of weapon dealers who don't want their sales of bacterial weapons falling down heavily because of this. This is because, the shuttle has successfully performed an gene-splicing experiment in outer space, relieving the American Space Industry after it is set for the shuttle to re-enter orbit, but there is one slight problem.

The experimental canister has to be transported from the moment the shuttle touches down, to an unknown designated laboratory, where it will be configured and analysed to affect the usage of bacterial weaponry, in 20 minutes. Only Blue Thunder has the speed capabilities to achieve this, and so Apex lends the unit to them.

After a accident involving the helicopter's entire electronics being short-circuited by power lines at a nearby power plant where the team managed to apprehend two men linked to the trading of German Warfare products, Profess

Chaney must convince the granddaughter of a dead mobster to turn her grandfather's business documents over to the FBI before his old business associates kill her to get them

The Blue Thunder team journeys to a small Caribbean island to prevent American mercenaries, who have been hired by the KGB, from killing the Prime Minister