Alcohol consumption is an established risk factor for head and neck cancer (HNC). The major carcinogen from alcohol is acetaldehyde, which may be produced by humans or by oral microorganisms through the metabolism of ethanol. To account for the different sources of acetaldehyde production, the current study examined the interplay between alcohol consumption, oral hygiene (as a proxy measure for the growth of oral microorganisms), and alcohol‐metabolizing genes (ADH1B and ALDH2) in the risk of HNC. We found that both the fast (*2/*2) and the slow (*1/*1 + *1/*2) ADH1B genotypes increased the risk of HNC due to alcohol consumption, and this association differed according to the slow/non‐functional ALDH2 genotypes (*1/*2 + *2/*2) or poor oral hygiene. In persons with the fast ADH1B genotype, the HNC risk associated with alcohol drinking was increased for those with the slow/non‐functional ALDH2 genotypes. For those with the slow ADH1B genotypes, oral hygiene appeared to play an important role; the highest magnitude of an increased HNC risk in alcohol drinkers occurred among those with the worst oral hygiene. This is the first study to show that the association between alcohol drinking and HNC risk may be modified by the interplay between genetic polymorphisms of ADH1B and ALDH2 and oral hygiene. Although it is important to promote abstinence from or reduction of alcohol drinking to decrease the occurrence of HNC, improving oral hygiene practices may provide additional benefit. What's new? Drinking alcohol increases risk of head and neck cancer, because the body metabolizes alcohol into acetaldehyde, a carcinogen. Bacteria lingering in the mouth can also perform this change, raising the question of whether oral hygiene influences cancer risk. These authors investigated the interaction between alcohol consumption, oral hygiene, and expression of alcohol metabolizing genes in relation to risk of head and neck cancer. They found that poor oral hygiene did indeed increase cancer risk among those with a genotype indicating slower alcohol metabolism, suggesting that careful teeth‐cleaning may reduce risk among those unwilling to forgo alcohol.