Train No. 15 was originally scheduled to arrive in Elburn at 7:50 a.m., said Metra spokesman Tom Miller. It struck a pedestrian near Cicero and Lake.
All trains on the line were stopped for about an hour. CTA officials honored Metra tickets on the Green Line.
The man struck by the train was dead at the scene, police News Affairs Officer Robert Perez said.
Fire Department crews responded to that location, but no hospital transport was made, Fire Media Affairs spokesman Richard Rosado said.
The location of the crash is about two miles west of the Kedzie Metra station, maps show.
Metra and Union Pacific freight trains share the tracks near the crash, which did not affect vehicle traffic through the area, Perez said.
The Sun-Times Media Wire contributed to this report.