Searching large databases is an important problem with broad applications. The Grover search algorithm provides a powerful method for quantum computers to perform searches with a quadratic speedup in the number of required database queries over classical computers. Here, we report results for a complete three-qubit Grover search algorithm using the scalable quantum computing technology of trapped atomic ions, with better-than-classical performance. The algorithm is performed for all 8 possible single-result oracles and all 28 possible two-result oracles. Two methods of state marking are used for the oracles: a phase-flip method employed by other experimental demonstrations, and a Boolean method requiring an ancilla qubit that is directly equivalent to the state-marking scheme required to perform a classical search. All quantum solutions are shown to outperform their classical counterparts. We also report the first implementation of a Toffoli-4 gate, which is used along with Toffoli-3 gates to construct the algorithms; these gates have process fidelities of 70.5% and 89.6%, respectively.