The newspaper reported that Victor Mallet was turned away at the border on Thursday after being questioned for several hours. He had sought to enter as a visitor.
Mallet's visa rejection in October came shortly after he hosted a talk at the Hong Kong Foreign Correspondents' Club by the head of a now-banned political party advocating the financial hub's independence from China.
That brought heated criticism from the territory's pro-China elites, some of whom called for the journalists' organization to be kicked out of its clubhouse in the central financial district.
Hong Kong's immigration authority has given no explanation for his expulsion and on Friday responded with a statement saying it would "act in accordance with the laws and policies and decide whether the entry will be allowed or refused after careful consideration of the circumstances of each case."
In Beijing, foreign ministry spokeswoman Hua Chunying said Hong Kong had the right to decide who could enter the territory.
"As you know, when people travel around the world, it is normal for every country to permit or reject a visitor's entry according to its law governing the administration of entry and exit," Hua said at a daily news briefing.
Despite Mallet's rejection, Hong Kong on Friday permitted dissident writer Ma Jian to enter to attend a literary festival, even after an arts venue in the city had canceled his appearance.
Soon after his arrival, festival organizers tweeted that the venue had reversed its position and would allow him to speak.
Ma, whose novels frequently satirize China's Communist leaders, told reporters at the Hong Kong airport that he had experienced nothing unusual while passing through passport control.
"The lecture will definitely happen. If there is a single Hong Kong person who is willing to listen, or a single reader who contacts me, I will be there," Ma said.
Ma speculated there was a "black hand" behind the authorities controlling the conditions under which he could appear, but vowed to "communicate with readers over these days in Hong Kong however possible."
In a statement Friday, the Hong Kong Journalists Association said that in barring Mallet's entry, the government was "severely violating the freedoms of press and speech, and further damaging the reputation and status of Hong Kong as an international city," according to the newspaper South China Morning Post.
Pro-democracy legislators on the city council also expressed worries over the incident, saying the erosion of basic legal rights could harm Hong Kong's ability to attract foreign investment.
The denial of a visa to Mallet had been widely condemned by journalists, human rights and civic society groups in Hong Kong, who saw it as a sign of China's growing encroachment on freedom of speech in the Asian financial hub.
Concerns have also been raised by the apparent kidnappings and prosecutions in China of independent booksellers and legal cases brought against pro-democracy legislators and organizers of large-scale anti-government protests in 2014.
Hong Kong was promised semi-autonomy for 50 years as part of its 1997 handover from British rule, allowing it to retain its limited democracy and rights to assembly and free speech that are denied on the Chinese mainland.
The Foreign Correspondents' Club dates back more than 75 years to when Hong Kong was a British colony.
At the Aug. 14 talk at the FCC, Mallet introduced Hong Kong National Party leader Andy Chan by acknowledging official criticism while citing the territory's tolerance for dissent.
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