The remains of Shell employee Tambi Jiee, 49, and one-year-old Benjamin Lee will arrive at Bunga Raya Complex at Kuala Lumpur International Airport at 8.30 a.m., the Malaysian Star reported.
Transport Minister Liow Tiong Lai said the remains would be accorded full military honours.
A total of 43 Malaysian nationals were on board the ill-fated plane.
In August, the coffins of the first 22 Malaysian victims identified in the Netherlands reached Kuala Lumpur airport, where soldiers took them out of the plane that flew them home and draped them in the national flag.
Flight MH17, which had left Amsterdam for Kuala Lumpur, was shot down by a surface-to-air missile July 17 when flying over eastern Ukraine. All 298 people on board were killed.
This was the second tragedy to hit Malaysia Airlines this year, after the disappearance March 8 of its flight MH370, en route from Kuala Lumpur to Beijing with 239 people on board.