Morse's friend Beryl Newsome is stabbed at a rehearsal for an amateur production of The Magic Flute. Then Lewis starts uncovering incriminating evidence,
including the transfer by the murder victim of ·99,000 into Morse's bank account. With his rival Bottomley pursuing him, Morse finds himself at the top of the suspect list and is eventually arrested for the murder he is investigating. After his arrest, Morse's house is searched, and a clergyman's body is found in a cupboard. With Morse seeing a Masonic conspiracy, Lewis suspects that someone with a grudge is out to frame Morse, partly by hacking into computer systems.
After his release, Morse becomes the target of a direct attack, when his house catches fire, with him in it. Who wants to get at Morse so badly? Can it really be an old enemy who is dead?

The apparently motiveless murder of two young women points to a psychotic killer. Morse's speculations on what they might have in common leads him to a local garage owner, Jeremy Boynton, who knew them both, and who arouses his suspicions and dislike. Convinced that Boynton holds the key to the crime, Morse begins to hound him, despite having no firm evidence. Morse is also faced with the possible loss of his beloved red Mk II Jaguar.

Morse investigates the murder of Trevor Radford, managing director of the family-owned Radford's Brewery, who was attacked and killed while working late.
Morse becomes immersed in the implications of a hostile take-over bid by another company. Then Trevor's widow, Helen, goes to the brewery to look for his brother Stephen (with whom she was having an affair) and finds him also murdered.

Morse investigates a tangled web of academic intrigue around the baffling murder of Dr Julian Dear, who was a college don and a famous environmentalist. Dear was killed just minutes before he was due to give a controversial lecture. It soon appears that the most respectable of academic families can have skeletons in the cupboard, but Morse has to put his job on the line to get at the truth.