They were living in squalid conditions, naked and underweight. According to Nine News, the pair suffer from intellectual disabilities.
Paramedics assessed the pair at the scene and they were transported to Prince Charles Hospital.
Their current conditions cannot be confirmed.
Queensland's Minister for Child Safety Di Farmer described the incident as "horrific".
Two teenage boys were found naked in squalid conditions at this Brisbane home. Photo / Channel 9
"Hearing about events like this in our community is never easy," Farmer said.
"My thoughts are with these two young men who are getting the support and care they need."
Queensland Police declined to comment on the circumstances surrounding the discovery of the young men.
It would only say that the older man's death is not believed to be suspicious, but they will wait on the results of a post-mortem examination.