The invention discloses a small-bore nuclear pore filter membrane and a production method thereof, which are used for solving the problem that the conventional production process cannot produce a columnar nuclear pore filter membrane with the pore diameter between phi0.03 and phi2 microns. The method comprises the following steps: irradiating a membrane to form a columnar damage area by using high-energy sulfur ions; irradiating the ion-irradiated membrane by using ultraviolet for 1 to 2 hours under an oxygen-containing environment that the oxygen concentration is not lower than 2/5; ageing the ultraviolet-irradiated membrane under a ventilated environment; and putting the aged membrane into an alkali etching bath with an ultrasonic device to perform etching, oscillating the alkali etching solution by using ultrasonic during etching, and obtaining the columnar nuclear pore filter membrane with the pore diameter between phi0.03 and phi2 microns after etching. The method is simple, has low cost, can be greatly popularized and can realize industrialization.