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American civil aviation and Boeing investigators search through the debris at the scene of an Ethiopian Airlines crash, near the town of Bishoftu, Ethiopia, on March 12, 2019.BAZ RATNER/Reuters

As the pilots of the doomed Boeing jets in Ethiopia and Indonesia fought to control their planes, they lacked two notable safety features in their cockpits.

One reason: Boeing charged extra for them.

For Boeing and other aircraft manufacturers, the practice of charging to upgrade a standard plane can be lucrative. Top airlines around the world must pay handsomely to have the jets they order fitted with customized add-ons.

Sometimes these optional features involve aesthetics or comfort, such as premium seating, fancy lighting or extra bathrooms. But other features involve communication, navigation or safety systems, and are more fundamental to the plane’s operations.

Many airlines, especially low-cost carriers such as Indonesia’s Lion Air, have opted not to buy them – and regulators don’t require them.

Related: Boeing to offer previously optional safety feature as standard in 737 Max software upgrade

Also: Air Canada, WestJet purchased safety option reportedly missing on crashed Boeing Max 8 planes

Now, in the wake of the two deadly crashes involving the same jet model, Boeing will make one of those safety features standard as part of a fix to get the planes in the air again.

It is not yet known what caused the crashes of Ethiopian Airlines Flight 302 on March 10 and Lion Air Flight 610 five months earlier, both after erratic takeoffs. But investigators are looking at whether a new software system added to avoid stalls in Boeing’s 737 Max series may have been partly to blame. Faulty data from sensors on the Lion Air plane may have caused the system, known as MCAS, to malfunction, authorities investigating that crash suspect.

Federal prosecutors are investigating the development of the Boeing 737 Max jet, according to a person briefed on the matter. As part of the federal investigation, the FBI is also supporting the Department of Transportation’s inspector general in its inquiry, said another person with knowledge of the matter.

The Justice Department said that it does not confirm or deny the existence of any investigations. Boeing declined to comment on the inquiry.

The jet’s software system takes readings from two vane-like devices called angle-of-attack sensors that determine how much the plane’s nose is pointing up or down relative to oncoming air. When MCAS detects that the plane is pointing up at a dangerous angle, it can automatically push down the nose of the plane in an effort to prevent the plane from stalling.

Boeing’s optional safety features, in part, could have helped the pilots detect any erroneous readings. One of the optional upgrades, the angle of attack indicator, displays the readings of the two sensors. The other, called a disagree light, is activated if those sensors are at odds with one another.

Boeing will soon update the MCAS software, and will also make the disagree light standard on all new 737 Max planes, according to a person familiar with the changes, who spoke on condition of anonymity because they have not been made public. The angle of attack indicator will remain an option that airlines can buy.

Neither feature was mandated by the Federal Aviation Administration. All 737 Max jets have been grounded.

“They’re critical, and cost almost nothing for the airlines to install,” said Bjorn Fehrm, an analyst at the aviation consultancy Leeham. “Boeing charges for them because it can. But they’re vital for safety.”

Earlier this week, Dennis Muilenburg, Boeing’s chief executive, said the company was working to make the 737 Max safer.

“As part of our standard practice following any accident, we examine our aircraft design and operation, and when appropriate, institute product updates to further improve safety,” he said in a statement.

Add-on features can be big money-makers for plane manufacturers.

In 2013, around the time Boeing was starting to market its 737 Max 8, an airline would expect to spend about US$800,000 to US$2-million on various options for such a narrow-body aircraft, according to a report by Jackson Square Aviation, a consultancy in San Francisco. That would be about 5 per cent of the plane’s final price.

Boeing charges extra, for example, for a backup fire extinguisher in the cargo hold. Past incidents have shown that a single extinguishing system may not be enough to put out flames that spread rapidly through the plane. Regulators in Japan require airlines there to install backup fire extinguishing systems, but the FAA does not.

“There are so many things that should not be optional, and many airlines want the cheapest airplane you can get,” said Mark Goodrich, an aviation lawyer and former engineering test pilot. “And Boeing is able to say, ‘Hey, it was available.’”

But what Boeing doesn’t say, he added, is that it has become “a great profit centre” for the manufacturer.

Both Boeing and its airline customers have taken pains to keep these options, and prices, out of the public eye. Airlines frequently redact details of the features they opt to pay for – or exclude – from their filings with financial regulators. Boeing declined to disclose the full menu of safety features it offers as options on the 737 Max, or how much they cost.

But one unredacted filing from 2003 for a previous version of the 737 shows that Gol Airlines, a Brazilian carrier, paid US$6,700 extra for oxygen masks for its crew, and US$11,900 for an advanced weather radar system control panel. Gol did not immediately respond to a request for comment.

The three American airlines that bought the 737 Max each took a different approach to outfitting the cockpits.

American Airlines, which ordered 100 of the planes and has 24 in its fleet, bought both the angle-of-attack indicator and the disagree light, the company said.

Southwest Airlines, which ordered 280 of the planes and counts 36 in its fleet so far, had already purchased the disagree alert option, and it also installed an angle-of-attack indicator in a display mounted above the pilots’ heads. After the Lion Air crash, Southwest said it would modify its 737 Max fleet to place the angle-of-attack indicator on the pilots’ main computer screens.

United Airlines, which ordered 137 of the planes and has received 14, did not select the indicators or the disagree light. A United spokesman said the airline does not include the features because its pilots use other data to fly the plane.

Boeing is making other changes to the MCAS software.

When it was rolled out, MCAS took readings from only one sensor on any given flight, leaving the system vulnerable to a single point of failure. One theory in the Lion Air crash is that MCAS was receiving faulty data from one of the sensors, prompting an unrecoverable nose dive.

In the software update that Boeing says is coming soon, MCAS will be modified to take readings from both sensors. If there is a meaningful disagreement between the readings, MCAS will be disabled.

Incorporating the disagree light and the angle-of-attack indicators on all planes would be a welcome move, safety experts said, and would alert pilots – as well as maintenance staff who service a plane after a problematic flight – to issues with the sensors.

The alert, especially, would bring attention to a sensor malfunction, and warn pilots they should prepare to shut down the MCAS if it activated erroneously, said Peter Lemme, an avionics and satellite-communications consultant and former Boeing flight controls engineer.

“In the heat of the moment, it certainly would help,” he said.

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