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The man, who had significant pre-existing underlying health conditions, died earlier on Thursday evening in Edinburgh Royal Infirmary.
The health board said that he was one of the confirmed cases in the outbreak, which began in the Scottish capital at the beginning of June.
The first man to die was named as Robert Air, 56, from the Seafield area of the capital, whose death was reported on June 5.
A second person has died after catching Legionnaires' disease during a outbreak in Edinburgh, NHS Lothian said.
Cases of a deadly outbreak of Legionnaires' disease in Scotland have risen again, the Scottish Government has confirmed.
There are now 82 confirmed and suspected cases of Legionnaires' disease from the outbreak in the south-west of Edinburgh.
This is an increase of one in the total number of confirmed cases, taking the number to 37, and an increase of one suspected case from yesterday, taking the total to 45.
The Health and Safety Executive and Edinburgh City Council are continuing their investigations into the possible source of the outbreak.
Cases of a deadly outbreak of Legionnaires' disease have risen again, the Scottish Government's Health Secretary has confirmed.
There are now 80 confirmed and suspected cases of Legionnaires' disease from the outbreak in the south-west of Edinburgh.
This is an increase of eight in the total number of confirmed cases and a decrease of two suspected cases.
There are now 74 confirmed and suspected cases of Legionnaires' disease amid an outbreak in the Scottish capital.
Scottish Health Secretary Nicola Sturgeon has said the increase of 13 in the total number of confirmed and suspected cases had been expected.
Twenty-eight people have now been confirmed as having Legionnaires' disease and another 46 are suspected of having it.
So far one man has died, named locally as 56-year-old Robert Air, from Seafield in Edinburgh.
A company in Edinburgh has closed three of its water cooling towers, amid concerns that one of the towers could be the source of the deadly outbreak of Legionnaire's disease.
North British Distillery Company was served an '"Improvement Notice" by the Government's Health and Safety Executive:
The company has closed all three cooling towers on the site as a safety precaution.
Family and friends of the man who died of Legionnaires' disease in Edinburgh have spoken about of their shock at his death.
Daybreak's Gregg Easteal reports.
The NHS has tried to calm growing fears among parents over the latest outbreak of Legionnaire's disease.
NHS 24 Medical Director Professor George Crooks, has said: " Legionella is a bacteria that doesn't tend to affect children."
Latest ITV News reports
The Scottish Health Secretary says there are 24 confirmed and 37 suspected cases of Legionnaires' disease. She expects this figure to rise.
Legionnaires' is a disease that strikes fear in people and its history shows it can be deadly.