We combine a general formulation of microswimmer equations of motion with a numerical beadshell model to calculate the hydrodynamic interactions with the fluid, from which the swimming speed, power, and efficiency are extracted. From this framework, a generalized Scallop theorem emerges. The applicability to arbitrary shapes allows for the optimization of the efficiency with respect to the swimmer geometry. We apply this scheme to "three-body swimmers" of various shapes and find that the efficiency is characterized by the single-body friction coefficient in the long-arm regime, while in the short-arm regime the minimal approachable distance becomes the determining factor. Next, we apply this scheme to a biologically inspired set of swimmers that propel using a rotating helical flagellum. Interestingly, we find two distinct optimal shapes, one of which is fundamentally different from the shapes observed in nature (e.g., bacteria). Published by AIP Publishing.