Continental crust formed billions of years ago but cannot be explained by a simple evolution of primary mantle magmas. A multi-step process is required that likely includes re-melting of wet metamorphosed basalt at high pressures. Such a process could occur at depth in oceanic crust that has been thickened by a large magmatic event. In Central America, variations in geologically inferred, pre-existing oceanic crustal thickness beneath the arc provides an excellent opportunity to study its effect on magma storage, re-melting of meta-basalts, and the potential for creating continental crust. We use surface waves derived from ambient noise tomography to image 6% radially anisotropic structures in the thickened oceanic plateau crust of Costa Rica that likely represent deep crustal melt sills. In Nicaragua, where the arc is forming on thinner oceanic crust, we do not image these deep crustal melt sills. The presence of these deep sills correlates with more felsic arc outputs from the Costa Rican Arc suggesting pre-existing thickened crust accelerates processing of primary basalts to continental compositions. In the Archean, reprocessing thickened oceanic crust by subsequent hydrated hotspot volcanism or subduction zone volcanism may have similarly enhanced formation of early continental crust. This mechanism may have been particularly important if subduction did not initiate until 3 Ga.