The objective of the present study was to investigate the effects of α‐cyclodextrin‐allyl isothiocyanate (CD‐AI) on ruminal microbial methane production and rumen fermentation of corn starch, soluble potato starch or hay plus concentrate (1.5:1) by mixed rumen microorganisms. Diluted rumen fluid (30 mL) was incubated anaerobically at 38°C for 6 and 24 h with or without CD‐AI (0, 0.4, 0.8, 1.6 and 3.2 g/L). The pH of the medium was unchanged by CD‐AI in all substrates. The molar proportion of acetate was decreased and propionate was increased with a corresponding decrease in acetate : propionate ratio (P < 0.05). Total volatile fatty acids and butyrate were increased (P < 0.05). Ammonia‐N was decreased (P < 0.05). Except with soluble potato starch, numbers of protozoa were unchanged after 6 h. As concentration of CD‐AI increased from 0 to 3.2 g/L, fermentation of corn starch, soluble potato starch and hay plus concentrate resulted in decreased (P < 0.05) methane production of 49–100% (6 h) and 14–100% (24 h); 39–100% (6 h) and 16–100% (24 h); and 45–100% (6 h) and 17–100% (24 h), respectively. When hay plus concentrate was used as substrate, methanogenic bacteria were decreased (P < 0.05) with 0.8 g/L of CD‐AI after 6 h. Excluding the lower dose level (0.4 g/L) of CD‐AI, digestibility of neutral detergent fiber of hay plus concentrate was decreased (P < 0.05) after 24 h. A suitable level of CD‐AI could therefore be used as a supplement to inhibit methane production and improve rumen fermentation without detrimental effects on fiber digestion.