The former Council of Trade Unions president is dying of cancer and had sought permission through her doctor to import and use Bloom Farmers Highlighter Sativa and Indica cannabis oil inhalers.
In a letter to Ms Kelly, the Ministry says it's assessed the application but "considered it to contain insufficient information to enable a decision to be reached".
It then says that the Associate Minister of Health Peter Dunne was briefed and a "Ministerial decision was made to defer the application".
Ms Kelly's doctor has suggested to the Ministry that he is now preparing an application for Sativex.
But Ms Kelly has told ONE News that she doesn’t want Sativex because it's "not suitable" for her pain.
She wants the Ministry of Health to tell her what the best products are and what they will approve, saying they should be "forced to make a recommendation one way or another".
Nelson teen Alex Renton was given special permission to use cannabis medication before his death last year.