That's easy SM. Use DUCs, then PPBs (and maybe shield depleters if opponents get phased shields and you don't have APBs), then APBs + SDepleters. And always use IDs.
Most other weapons are useless for general ship design (except computer viruses and a few racial weapons that are comparable to the DUC/PPB/APB line). MBs are nice, but are overpowerd by PPBs, and way overpowered by later APBs.