The synagogue fell into disuse and ruin after the deportation and drowning of the Jewish community of Chania in July 1944.

[1] After being restored during the late 1990s, the synagogue (with its mikveh) became a tourist destination and attracted visits from foreign dignitaries including the Queen Sofía of Spain and King Constantine II of Greece, both who made an unannounced visit to the site in March 2006.

[3] Occasionally, a rabbi or (during the Jewish holidays) someone who is able to blow the shofar visits the community.

[4] Despite the community's Romaniote past, the congregation today uses primarily the Sephardic custom of Greece and has developed its own Haggadah text.

[2] The synagogue was the target of multiple arson attacks in January 2010; fires were set inside the synagogue on 5 and 16 January, and a bar of soap was left outside during the latter, presumably invoking a common Greek-language antisemitic threat which translates to "I'll make you into a bar of soap".