According to Government lawyer Anselm Charles Fernandis the suspects pleaded not guilty to the charges in a Kuala Lumpur district on Friday, Jan 29.
If convicted the suspects face a maximum penalty of 20 years. The trial date has not yet been scheduled by the court.
The three suspects are the first to be charged in connection with the strings of assault that took place in places of worship over the debate whether the word 'Allah' can be uttered by non-Muslims.
Eleven churches were attacked, mainly with fire bombs in the past three weeks.