The chain recently stopped funding The Salvation Army and the Fellowship of Christian Athletes (FCA) after pressure over the belief that the charities opposed same-sex marriage.
Ellie Goulding also recently threatened not to participate in a Christmas charity event unless The Salvation Army donated to the LGBTQ community, which they said that they did and the event continued.
However, Chick-fil-A pulled out of both charities completely, with owners saying they had donated as long as they had agreed to and will now focus on education, homelessness and hunger.
The Chick-fil-A Foundation is reported to have donated $115K to the Salvation Army and $1.65M to the FCA in 2018.
Chick-fil-A opened its first branch in Reading on 10th October, however, it was revealed that the outlet would be temporary eight days later.
The opening in the Oracle shopping centre prompted criticism from LGBT groups due to comments made by the founder's Christian son.
Now, the company is being criticised for funding the Southern Poverty Law Centre, a group that campaigns against hate groups such as white nationalists and Neo-Nazis but has also been accused of putting mainstream conservative organisations on its 'hate map' of groups in America.
One of the groups on the hate map is the evangelical group Family Research Council, who had an attempted attack on their building in 2012 because of their opposition to same-sex marriage.
FRC President Tony Perkins has denounced the Chick-fil-A Foundation's support of what he called "one of the most extreme anti-Christian groups in America."
"Not only has Chick-fil-A abandoned donations to Christian groups including the Salvation Army, it has donated to one of the most extreme anti-Christian groups in America," Perkins said in a statement.
"Anyone who opposes the SPLC, including many Protestants, Catholics, Jews, Muslims, and traditional conservatives, is slandered and slapped with the 'extremist' label or even worse, their 'hate group' designation."
"It's time for Christians to find a fast food alternative to Chick-fil-A," he concluded.
On Twitter, Republican former Presidential candidate Ted Cruz said: "If true, @ChickfilA has badly lost its way. Millions of Christians have been proud of ChickFilA's courageous stands for religious liberty. To fund those who hate your customers is just sad."
Gov Mike Huckabee, who is also a Christian minister, said: "In Aug 2012, I coordinated a national @ChickfilA Appreciation Day after they were being bullied by militant hate groups. Millions showed up. Today, @ChickfilA betrayed loyal customers for $$. I regret believing they would stay true to convictions of founder Truett Cathey. Sad."
If true, @ChickfilA has badly lost its way. Millions of Christians have been proud of ChickFilA's courageous stands for religious liberty. To fund those who hate your customers is just sad. https://t.co/fF8Po4eu8l— Ted Cruz (@tedcruz) November 28, 2019
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