I think the only one who know are His parents, Professor Agasa, Ai Haibara, Heiji Hattori, Eisuke Hondou, Vermouth. and Also Kaitou Kid knows but that was only in the movie so I'm not sure if it's cannon. and I think there was that BO member in the 13th movie learned his identity but then died shortly after. Also in the Lupin III special Lupin and his gang learned Conan's Identity.
That's everyone I can think of at the moment, I'm probably forgetting someone since so many people learn who he is and u sally end up dying または going away indefinitely. well hope this helps.
Well I agree with thern but two もっと見る are there.. *Akemi Miyano (Deceased) * Subaru Okiya または Shuuichi akai go on this website and u'll come to know link