The Qufu Confucius Ancient Building Engineering Management Office launched restoration work yesterday.
The face-lift is expected to take three to five years with government funding of USD 48 million, state-run Xinhua news agency reported.
Qufu in southwest China's Shandong Province is known as the birthplace of the sage, who lived from 551 to 479 BC.
Confucius founded the philosophical system that has dominated Chinese social and political life for most of history after him.
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But his philosophical legacy came under sharp criticism during the Chinese Communist Party leader Mao Zedong who condemned him as a feudal and associated some of his preachings with slavery, the report said.
However, Confuciusianism gained ground after Mao Zedong's death as the party gradually restored the legacy.
In 1994, the Temple of Confucius, Cemetery of and Kong family mansion in Qufu were put on the World Heritage List of the UNESCO.
Kong Xiangmin, head of the engineering office, said it has cooperated with the Chinese Academy of Cultural Heritage in testing and monitoring the paint to determine its date.
The Confucius ancient architecture cluster, along with Beijing's Forbidden City and the Imperial Summer Resort in Chengde, are three of China's best preserved ancient building complexes.
Around 10 million people visit Qufu annually.