The defence ministry would not provide details of the sensitive weaponry development project when approached for comment.
A source close to the ministry said the military "has produced at least dozens of cruise missiles."
A top military chief spoke of the need for a military build-up despite the fast warming ties between Taipei and Beijing over the past two years.
"Although tensions between Taipei and Beijing have eased substantially, the Chinese Communists have not renounced the use of force against Taiwan," Lin Chen-yi, chief of the General Staff, told reporters in Taipei.
President Ma Ying-jeou gave an order in 2008 for the production of 300 Hsiungfeng 2E cruise missiles, according to the Taipei-based China Times.
The paper said Hsiungfeng 2E, which was developed by the military-run Chungshan Institute of Science and Technology, has a range of around 800 kilometres (500 miles).
The institute has spent 2.2 billion Taiwan dollars (68 million US) each year since 2000 on developing the missiles, whose name means Brave Wind, and managed to expand its range from 600 to 800 kilometres, it said.
The missile could be launched on land or at sea, the paper said, adding that it would be capable of hitting airports and missile bases in southeast China, as well as cities such as Shanghai and Hong Kong.