The military was also trying to rescue thousands of people cut off by fallen bridges and raging rivers across other parts of Taiwan, after the typhoon dumped a record three metres of rain on the island, triggering the worst flooding in 50 years.
Dozens have been reported killed and scores more remain missing across the country.
Many roads were washed out, some buildings were half submerged, and drowned animals could be seen floating in the water, our correspondent said.
Morakot, which means "emerald" in Thai, lashed the Philippines earlier last week, killing at least 21 people there.
China buildings toppled
|Washed away bridges have left Hsiao Lin cut off and hampered rescue efforts [Reuters]
In China, it triggered a massive landslide in eastern Zhejiang province that toppled up to seven apartment buildings and buried an unknown number of residents late on Monday.
The official Xinhua news agency said on Tuesday that the landslide in Pengxi town destroyed the four-storey buildings at the foot of a mountain.
Rescuers did not immediately know how many people were buried under the rubble.
The storm also sparked the evacuation of about 1.4 million people from Zhejiang and neighbouring coastal province Fujian, Chinese authorities said.
Morakot weakened to a tropical storm as it moved inland but still killed at least six people and left three others missing in its wake, flooding hundreds of villages and towns and causing more than 2,000 houses to collapse, Xinhua said.