There’s no evidence from Southwest Airlines, its pilots union or federal regulators that the mass cancellations that rocked its passengers over the past four days were related to the company’s recently announced vaccine mandate.

But aviation industry analysts are skeptical of the company chalking the debacle up to weather and staffing issues at air traffic control towers.

“To be clear: None of the information from Southwest, its pilots union, or the FAA indicates that this weekend’s cancellations were related to vaccine mandates,” the Federal Aviation Administration tweeted Monday evening.

Southwest CEO Gary Kelly echoed the FAA on Tuesday morning.

“There’s just no evidence of that,” he said on ABC’s “Good Morning America.” “Our people are working very hard. I’m very proud of them, especially when we get into a difficult situation like this.”

“I want to apologize to all of our customers. This is not what we want but unfortunately it just takes a couple of days to get things back on track,” he added.

Kelly made the rounds of morning television Tuesday to explain that the thousands of nationwide cancellations and delays were sparked by weather issues in Florida and compounded by air traffic control issues in the surrounding area, triggering a chain reaction of cancellations through the weekend and Monday.

The world’s largest low-cost carrier was forced to ground more than 25 percent of its scheduled flights and another 10 percent on Monday.As of 2 p.m. ET on Tuesday, Southwest had canceled about 90 scheduled flights, or about 2 percent of the day’s departures, according to Flight Aware. Another nearly 600 were delayed, the site said.

Aviation industry analysts said the cancellations was not likely caused by a so-called sick out or protest by pilots over the company’s recently announced COVID-19 vaccine mandate – despite speculation by politicians and others.

Still, analysts were skeptical of Southwest’s explanation, saying that the company is not being transparent about management’s own role in the debacle that left thousands of people stranded across the country.

“Gary Kelly was trying to pull the wool over the viewers’ eyes,” said Henry Harteveldt, president of the Atmosphere Research Group, of the CEO’s appearances on TV Tuesday morning.

“For Southwest, to say ‘the dog ate my homework’ is ridiculous,” he told The Post, referring to the airline’s efforts to blame air traffic control problems in Jacksonville.

Southwest should have been flexible enough to see the bad weather in Florida coming and adjust around it as well as to fix its schedule to deal with the alleged staffing problems at the air traffic control towers.

“Gary Kelly can’t blame others for the faults of Southwest Airlines. This clearly reflects a failure to anticipate and plan for operational disruptions, and clearly, illustrates the airline’s lack of adequate strategies and programs to recover from these disruptions.”

The weekend’s debacle is the result of cost cutting during the pandemic that went too far, said Arthur Wheaton, an expert in airline industries at Cornell University’s School of Industrial and Labor Relations.

“They don’t have enough wiggle room to handle a small hiccup in the system,” he said in a phone interview, adding that the airline has embraced just-in-time delivery and so-called Lean production, two increasingly popular industrial business practices focused on cutting excess.

The cost cutting has weighed on pilots and flight attendants, who have been burned out by excessive scheduling in recent months as demand for flying snapped back from the pandemic.

Southwest’s efforts to blame the disruptions on weather was likely an effort to avoid having to refund customers for flights and pay for accommodations, he added.

If a missed flight is the airline’s fault, they must pay for all accommodations, but if it’s an “act of God,” no one is responsible, he said, adding that he expects thousands of lawsuits to come.

Both Wheaton and Harteveldt agreed that the cancelations were not likely caused by pilots protesting the vaccine mandate, though, they said, it’s possible a few did which would have exacerbated the issues.

“Their timing could not be worse in terms of these two events happening,” Harteveldt said.

The mass cancellation, which came after the airline announced last week that it would require all of its employees to get the COVID-19 vaccine, sparked widespread speculation on social media over whether the disruption was related to the mandate.

Employees have until Dec. 8 to get vaccinated or face termination. The Dallas, Texas-based airline has approximately 56,000 employees.

And on Friday, just before the cancellations began, the union that represents Southwest’s pilots asked a court to temporarily block the company from implementing its vaccine mandate, further stoking speculation about a so-called “sick-out” protest.

But the FAA has now joined with the company as well as the union to insist that the nationwide cancellations and delays were sparked by weather issues in Florida, compounded by air traffic control issues in the surrounding area, triggering a chain reaction of cancellations through the weekend and Monday.

“The weekend challenges were not a result of Employee demonstrations,” a spokesperson for Southwest said Monday, adding that weather issues in Florida led to “displaced Crews and aircrafts.”

A spokesperson added in an email to CNBC that the speculation over a link between the cancellations and the vaccine mandate is “inaccurate.”

“There’s a lot of unfounded rumor and speculation circulating,” the company told the outlet.In addition, the Southwest Airlines Pilots Association, the labor union that represents the airline’s pilots, insisted the issues are not related to the vaccine order and instead are due to management’s “poor planning.”

“We can say with confidence that our pilots are not participating in any official or unofficial job actions,” the union said in a statement.