"We just felt it was a little bothersome early in the game and felt we needed to remove him and not take any chances," Padres manager Bud Black said of Maybin, who has had soreness in the calf in recent days. "This doesn't look to be a disabled-list thing."
Maybin was replaced on the basepaths by Chris Denorfia, who stayed in the game as Venable moved from right field to center field.
Maybin missed the first 25 games of the season while recovering from a ruptured left biceps he suffered in Spring Training.
Last season, Maybin appeared in only 14 games due to injuries to his left knee and right wrist. He later had surgery on the right wrist in September.
Maybin entered Saturday's game hitting .307. He had a double and his first home run of the season in Friday's 4-1 victory over the White Sox.
Corey Brock is a reporter for MLB.com. Keep track of @FollowThePadres on Twitter. This story was not subject to the approval of Major League Baseball or its clubs.