About 27kg of plants were seized during raids on Wednesday.
A 27 year old Coolum Beach man was charged with two counts of producing dangerous drugs as well as possession and other drug-related offences.
A 25-year-old Eumundi woman was charged with producing dangerous drugs.
The trio were due to appear in Noosa Magistrates Court on June 1.
Another 36 year old man from Noosaville was charged with possession of a dangerous drug and was drug diverted.
Detective Sergeant Tim Byrnes said on Wednesday there were at least seven rooms allegedly containing hydroponic marijuana which he said had an estimated street value of $100,000.
"We will allege the whole premise was being used for illicit purposes," he said.