The Morning and Afternoon Zephyr trains were limited stop runs. Because some stations were not in central downtown areas, connecting "Burlington Bus" service was provided at East Dubuque, Illinois, for Dubuque, Iowa; North La Crosse for La Crosse, Wisconsin, and Winona Junction, Wisconsin, for Winona, Minnesota.
The Zephyr trains that ran in the morning and afternoon were short-distance runs. To address this, "Burlington Bus" connections were established at East Dubuque, Illinois, for trips to Dubuque, Iowa; North La Crosse for La Crosse, Wisconsin, and Winona Junction, Wisconsin, for Winona, Minnesota.