Fr Flannery is a co-founder of the association, which has seen its membership rise to over 1,000 Irish priests.
Last January, Fr Flannery (66), who has been a Redemptorist since 1964, revealed that he had been threatened with excommunication over his views on women priests, contraception and celibacy.
"What does it mean to be a priest if you are not allowed to minister as a priest?" he asked.
"The longer it goes on with me out of ministry, I suspect, the more I will become controversial," he said, adding that this would "not be good for the Association".