You're absolutely right that the Department of Foreign Affairs, Trade and Development has a mandate for protecting Canadians overseas. That's still an integral component of the passport program, and it still has a role to play. Following the transfer, the passport program really harnesses the roles of three departments. The overall accountability is with the Minister of Citizenship and Immigration. The Minister of Employment and Social Development Canada delivers services in the in-Canada service delivery network, and the Minister of Foreign Affairs, Trade and Development continues to be responsible for delivering the passport program overseas, and obviously has a role in providing assistance to Canadians in need.
On November 17th, 2014. See this statement in context.