The Growth Associated Protein, GAP-43, is an axonally localized neuronal protein with high expression in the developing brain and in regenerating neurites. Mice that lack GAP-43 (GAP-43^-/-) fail to form a whisker-related barrel map. In this study, we use GAP-43^-/- mice to examine GAP-43 synaptic function in the context of thalamocortical synapse development and cortical barrel map formation. Examination of thalamocortical synaptic currents in an acute brain slice preparation and in autaptic thalamic neurons reveals that GAP-43^-/- synapses have larger AMPA (-amino-3-hydroxyl-5-methyl-4-isoxazolepropionate) receptor (AMPAR) mediated currents than controls, despite similar AMPAR function and normal probability of vesicular release. Interestingly, GAP-43-^-/- synapses are less sensitive to blockade by a competitive glutamate receptor antagonist, suggesting higher levels of neurotransmitter in the cleft during synaptic transmission. Field EPSPs from GAP-43^-/- thalamocortical synapses reveal a reduced fiber response and anatomical analysis shows reduced thalamic innervation of barrel cortex in GAP-43^-/- mice. Despite this fact synaptic responses in the field EPSPs are similar in GAP-43-/- mice and wild type littermate controls, and the ratio of AMPAR-mediated to NMDAR (N-methyl-D-aspartate receptor)-mediated currents (AMPAR/NMDAR ratio) is larger than normal. This suggests that GAP-43^-/- mice form fewer thalamocortical synapses in layer IV because of decreased anatomical innervation of the cortex, but the remaining contacts are individually stronger, possibly due to increased neurotransmitter concentration in the synaptic cleft. Together, these results indicate that in addition to its well known role in axonal pathfinding GAP-43 plays a functional role in regulating neurotransmitter release.