Synapse elimination was examined in the developing frog cutaneous pectoris muscle using histological and electrophysiological techniques. Morphological synapse elimination occurred in two phases. The first phase, which began at the time of metamorphosis and continued until the second to third postmetamorphic week, was characterized by a rapid decline in the number of endplates receiving greater than or equal to 3 synaptic inputs. However, 50% of the muscle fibers still remained dually innervated. This dual innervation decreased with a much slower time course; approximately 20% of the muscle fibers were dually innervated in 1- to 2-year-old frogs. During the first phase of synapse elimination no difference was noted between the distribution of acetylcholine receptors or acetylcholinesterase activity associated with the terminal arborizations formed by separate axons at one synaptic site. However, terminal arborizations formed by small diameter axons and consisting of varicosities separated by thin interconnectives became apparent during this period. Such varicose arborizations responded to nerve stimulation and released acetylcholine in proportion to their terminal length as did the nonvaricose arborizations. In addition, the number of morphological and physiological inputs at one endplate site was well correlated throughout the first phase of synapse elimination.