Yvonne Bélanger was arraigned at the St-Jérôme courthouse this morning.
The boy, named Loghann, died on May 4, 2011, while in the care of Bélanger, who ran a home daycare in Mirabel.
Bélanger had called emergency services and said the baby had fallen on his head.
Four years later, further analysis of the young victim's brain has established it was not an accident.
Bélanger has been released on bail with conditions and awaits trial.
She will be back in court June 16.
Provincial police also say Loghann's family plans to address the media in the near future.