The Saskatchewan Ministry of Environment says all three suspects are from a Saskatoon-area community.
The ministry also says the video was shot at a location in rural Saskatchewan, and that all three suspects face charges under both federal and provincial wildlife protection laws.
The video depicts two of the men firing at the ducks while the third captures their glee on camera.
The Internet posting led to widespread public outrage over the shooting.
The three men will appear in Saskatoon provincial court on Monday.