A Queens couple who became an unwitting surrogate for a pair of California families after a harrowing fertility-clinic mixup has settled their lawsuit against the facility.

The Flushing husband and wife, identified in court papers only as Y.Z. and A.P., had shelled out $100,000 for treatment at Cha Fertility Clinic in Southern California in 2018, which resulted in eight embryos and a pregnancy for A.P.

They were told she was having twin girls.

But in an “unimaginable mishap,” the clinic actually implanted two male embryos from different families into A.P., according to a lawsuit.

The mistake was revealed in ultrasounds during A.P.’s pregnancy, but Cha Fertility doctors dismissed those scans as mistaken, with one physician, Joshua Berger, telling the couple that his own wife was told after an ultrasound that she was having a boy, only to ultimately have a girl.

The snafu was confirmed when A.P. gave birth in March 2019 to healthy “twin” boys.

The couple was forced to give up the newborns to their respective biological parents, including Anni and Ashot Manukyan, who named their son Alec.

Heartbroken and embarrassed, Y.Z. and A.P. hadn’t told most of their friends and relatives about the incident by the time they sued Cha Fertility in Brooklyn Federal Court.

The couple “could not find the courage and the way to tell others about their devastating loss,” they claimed in the July 2019 lawsuit.

The case was eventually moved to California Federal Court, where the couple and the clinic filed paperwork this week informing the judge they’d reached a settlement for an undisclosed sum.

The deal, which has yet to be finalized, comes on the heels of an October settlement with Berger for $200,000.

“It’s been a long road for them,” said the couple’s attorney, Dae Lee. “It’s still a very touchy subject for them.”