According to MANA, the Malaysian Maritime Enforcement Agency (MMEA) said it had recovered the bodies of six women and three men and rescued two people from the early morning accident. Twenty-nine people were unaccounted for.
The agency said a combination of overloading and bad weather and heavy seas were believed to have caused the accident.
There has been a string of accidents in the waterways between Indonesia and Malaysia involving overloaded boats ferrying laborers seeking work in Malaysian factories and plantations.
In November, more than half of the 101 passengers aboard a boat died after it hit a reef and sank off the Indonesian island of Batam, south of Singapore.
Four months earlier, a boat sank while en-route to Batam. Malaysian authorities recovered eight bodies and rescued 34 people.
Malaysian police recovered 17 bodies in January last year after a boat carrying illegal migrants capsized in high seas.