A resource allocation method and apparatus are provided for allocating resources for handover between sectors of a cell with handover latency. A resource allocation method of a base station in a wireless communication system includes receiving a handover request message from a terminal for handover from a first sector to a second sector within a cell and transmitting an allocation message for allocating a Mobile Allocation Index Offset (MAIO) to the terminal, the MAIO being identical to an MAIO used in the first sector. The resource allocation method and apparatus are advantageous in preventing a voice break occurring due to handover latency caused by signaling between the base station and the terminal in inter-sector handover.