Provided are a method and apparatus for determining connection configuration between a user equipment (UE) and a base station (ENB) and performing handover in a wireless communication system supporting dual connectivity. The method of setting a connection configuration for a UE in a wireless communication system supporting dual connectivity may include: detecting occurrence of a handover event; selecting a macro ENB with the highest signal strength among neighboring macro ENBs and a small ENB with the highest signal strength among neighboring small ENBs; checking whether dynamic association is allowed in dual connectivity; and determining the connection configuration for the UE on the basis of the selected ENBs and checking result.