Grieving families and Dutch royals are due to receive the bodies as flags fly at half mast on a day of mourning across the nation, which lost 193 citizens in the flight that was allegedly blown out of the sky by a missile, turning civilians from a dozen nations into casualties of a remote conflict raging in eastern Ukraine.
US officials said the Kuala Lumpur-bound plane from Amsterdam was mistakenly shot down by pro-Russian separatists as investigators hope two black boxes, which will be sent to Britain for analysis, would help to shed light on the disaster that killed all 298 on board.
The recovery of the crucial flight recorders and the victims' remains came after days of bitter wrangling with pro-Russian separatists controlling the crash site, who finally released them under intense international pressure.
But officials say many remains were still on the sprawling crash site in rebel-held territory, decomposing under the summer heat.
Evidence gathered by US intelligence officials suggests pro-Russian separatists launched the SA-11 surface-to-air missile that blew up the Malaysia Airlines flight on Thursday, but it remains unclear "who pulled the trigger" and why.
"The most plausible explanation... was that it was a mistake", and that the missile was fired by "an ill-trained crew" using a system that requires some skill and training, said a senior intelligence official who spoke on condition of anonymity.
"We've all seen mistakes in the past," the official told reporters, in reference to a Korean airliner downed by a Soviet fighter jet in 1983, and an Iranian passenger plane shot down by US naval forces in 1988.
Russia, which US officials accuse of backing the separatists by providing them with military hardware and training, has faced a hail of international condemnation over the accident.
The crash has spurred an intense propaganda war, with both Ukraine and Russia trading blame, ratcheting up tensions after months of crisis sparked when Kiev turned its back on its former Soviet master in favour of stronger European ties.
Russia denies supporting the rebels who have declared independence in parts of Russian-speaking eastern Ukraine and also says it did not supply the missile system allegedly used to bring down MH17.
US intelligence officials said Russian claims the Ukrainian government had shot down the plane were "not plausible" noting that the territory was clearly under rebel control.
A senior security official in Kiev claimed that Russia had massed over 40,000 soldiers along its border over the past week.