The ALPHA study (NCT03695510) was a single-arm, Phase II study with Simon's 2-stage design. Afatinib and pembrolizumab were administered to patients with platinum-refractory, recurrent, or metastatic HNSCC....EGFR amplification predicted a higher response rate (EGFR amplification, n = 3; ORR, 100%, Fisher exact test, P = 0.07). Methylthioadenosine phosphorylase (MTAP) loss or mutation predicted a lower response rate (MTAP loss or mutation, n = 5; ORR, 0%, Fisher exact test, P = 0.046)....Afatinib may augment pembrolizumab therapy and improve the ORR in patients with HNSCC.