There was a 20-member crew on the tanker, which has been operating in the West African zone for the past 60 days.
In Ivory Coast, people living with leprosy say they often face social exclusion. Some now live together in a commune.
Return of 46 soldiers signals resolution of a bitter diplomatic standoff between the Ivory Coast and Mali.
The mass pardoning comes one week after Mali sentenced 46 of the jailed Ivorian soldiers to 20 years in prison.