A long list. Among them: the Netinim, the idolaters during the
First Temple period, the Hellenizers, the Sadducees, the Baitusim
(Boethusians), the Essenes, the apikursim and minim, the Karaites,
the followers of Shabbetai Zevi and other false messiahs, Jewish
communists (Yevsektsia), Yiddishists, Bundists, assimilationists,
and more.
The Samaritans may or may not have ever been halakhically Jewish
in the distant past.
Most of these breakaway groups were lost to history, while
others (such as the Karaites) are moribund and remain only a shadow
of their former selves.