The stunt was also done at "never more than 15 kilometres per hour".
One witness, who was watching filming, described it as "out-of-control".
"People were running on the sidewalk, the motorcycle comes flying across the street, looks like from a ramp because it was in the air," he told Canadian cable network Global News .
"(The rider was) standing on the bike, slams into that building, clearly hit and out-of-control and clearly not planned."
The witness added: "It was so out-of-control, it looked like an accident".
Immediately after the crash, production was halted for 48 hours.
When the cast and crew returned to set, they observed a minute silence in remembrance of Harris.
Ryan Reynolds, the star of the Deadpool franchise, was photographed in the centre of the group, bowing his head out of respect.
Reynolds took to Twitter to mourn the tragic death of Harris and to send his love to her family.
Deadpool 2 is still slated for release on June 1, 2018.