Dozens, possibly hundreds, of foreign couples are thought to have been left in limbo after entering into surrogacy arrangements through clinics in the kingdom.
Army chief General Prayut Chan-O-Cha, who seized power in a coup three months ago, said in his weekly televised address late yesterday that the military rulers would move quickly to find "sustainable solutions".
"We are concerned that Thai women who are already surrogates will not dare to consult doctors at hospitals while they are pregnant because they are afraid that they would be prosecuted," he said.
"I have already ordered leniency on a case-by-case basis."
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Commercial surrogacy is officially banned by Thailand's Medical Council, but until recently even top fertility clinics were believed to offer the service.
The junta has vowed to introduce a new law that could result in 10 years' imprisonment for anyone found guilty of involvement in the trade.
In the past few weeks a number of fertility clinics have been raided and some have been closed down.
The couple have denied deliberately leaving the boy, called Gammy, with the surrogate mother, who was paid around USD 15,000 to carry the twins.
In a separate case, police believe a Japanese man fathered at least 15 babies with surrogate mothers for unknown motives.