Police hold grave fears for a two-year-old boy who went missing on a Far North Queensland cattle station two days ago and was still not found when fading light called off their search on Thursday evening.

Key points: The boy was last seen playing with his puppy in the garage

A major search using police, SES and Indigenous rangers yesterday found no sign of him

Police divers are being flown in from Brisbane to scour the property's waterways

Ruben Scott was playing with a puppy in the garage before he went missing from the homestead on Koolatah Station, about 100 kilometres east of Kowanyama in Cape York, late on Tuesday afternoon.

A massive search operation is underway, with Cape Patrol Inspector Mark Henderson saying police divers had searched the lagoon and the Mitchell River, which the station backs onto.

"It's coming to that time where we start to — the fears that we have for this young fellow — start to become grave," he said.

"We won't stop. We will keep continuing.

"We will try to reunite that child with his parents and grandparents."

The search continued until darkness fell on Thursday evening.

Space to play or pause, M to mute, left and right arrows to seek, up and down arrows for volume. Watch Duration: 31 seconds 31 s Authorities search for 2yo boy in remote western Qld

Inspector Henderson spent several hours going through drone footage, which picked up heat objects.

Other police and SES crews arrived from Cairns on Wednesday to scour the area for the boy but failed to find any sign of him.

Seven helicopters, including mustering helicopters, were also involved in the search, along with 20 neighbours, ringers from nearby stations, and Indigenous rangers from Kowanyama.

Ruben Scott, 2, is missing from Koolatah Station in Far North Queensland. ( Supplied: Natasha Scott )

The area is a known crocodile habitat.

"There's a lot of water in the immediate area where he went missing," SES regional director Wayne Coutts said.

"It's always a concern in any search, but especially with a young one involved."

Dozens of people are helping in the search, including several helicopters. ( Supplied: Queensland Police Service )

'Trying to hold myself together'

Inspector Henderson said it had been "another long night" coming into Thursday morning and while conditions had been good for searching, it would have been cold for Ruben overnight.

"We hear the mum is very distraught and out there all the time, encouraging searchers," he said.

Ruben's mother Natasha Scott took to Facebook to thank everyone, saying that she had "every person that can help, helping to find him".

Koolatah Station backs onto a lagoon and the Mitchell River, with police divers searching waterways. ( Supplied )

"I understand all you guys are shocked and worried but please, try to hold back from messaging me," she wrote.

"I'm trying to organise heaps of things to help find him and am trying to hold myself together."

While his aunty Cherese Scott wrote, "come home baby please Aunty Reesey misses you, we all miss you".

It is understood the family has been living at the 1,700 square kilometres property since January.