Visible crew/equipment: On the way to the theater Peter intercepts a police officer chasing a couple of criminals. At the end of that scene one of the police cars has a tremendous wreck that swings the car sideways. There is a clear shot of the driver with a black helmet on.
Visible crew/equipment: In the very last scene of Mary Jane looking over the city in Peter's apartment, there is a reflection in the window where the camera lens and cameraman are partially visible.
Visible crew/equipment: Boom mic reflected on upper part of phone when Peter puts a 50 cent coin in.
Visible crew/equipment: When Peter rides his motorbike, in the wide shots he's replaced by an obvious stunt double who wears safety goggles.
Visible crew/equipment: Film crew and boom mic reflected on lower left glass of cafe when Dr. Ock approaches.
Visible crew/equipment: The camera and a boom mic are visible in the police car lights in the scene directly following the first accident with Doc Ock.
Visible crew/equipment: After he watches Mary Jane exiting from the theatre with her boyfriend, Peter is running in the alley to put on the costume. On the wet ground you can see the traces of the tires belonging to the camera car used to shoot the scene.
Answer: Unless there is is a deleted scene to shed light on the issue, then it's not really addressed in the movie. It's possible that Doc Ock and Harry had a second meeting that took place off-screen in which Ock revealed to Harry where his hideout was, but as there's nothing really to go on, it's anyone's guess and it's reasonable to consider it a plot hole.
Phaneron ★