It said a multi-agency task force had cleared and carried out a deep-clean of the area, while support had been offered to those rough sleeping.
Daily checks of the area will continue, it added.
The council spokesperson said: “The current rough sleepers at the station have refused all offers of support and accommodation to date.
“Our specialist team will continue to work with partners to prevent rough sleeping and homelessness in Eastbourne.
“We strongly encourage people to donate to local homelessness charities, not give money to rough sleepers, which often causes more harm than good.”