The tympanic membrane (or ear drum) sits at the interface between the middle and external ear. The membrane is composed of three layers: an outer ectodermally-derived layer, a middle neural crest-derived fibroblast layer with contribution from the mesoderm-derived vasculature, and an inner endodermally-derived mucosal layer. These layers form a thin sandwich that is often perforated as a consequence of trauma, pressure changes, or middle ear inflammation. During healing, cells need to bridge the perforation in the absence of an initial scaffold. Here we assess the contribution, timing, and interaction of the different layers during membrane repair using markers and reporter mice. We show that the ectodermal layer retracts after perforation, before proliferating away from the wound edge, with Keratin 5 basal cells migrating over the hole to bridge the gap. The mesenchymal and mucosal layers then use this scaffold to complete the repair, followed by advancement of the vasculature. Finally, differentiation of the epithelium leads to formation of a scab. Our results reveal the dynamics and interconnections between the embryonic germ layers during repair and highlight how defects might occur.