that's the neat part you don't.
but for real check your infamy, the higher it is the higher the percentage of radicals will be in newly conquered territory. if the primary culture of the state is discriminated in your country, then they get hit with the discrimination penalty which will reduce their wages which lowers their SoL thus more radicals. so try to either conquer somewhere where you won't get hit for discrimination, or change your laws to accept more people.
aside from that there's probably nothing else you can do but to watch the secession counter go up and crush them once they rise up, then incorporate them so they get less radical by your police and home affairs institutions, and your healthcare for easy SoL boost.
violent suppression decree also does not decrease the amount of radicals as far as i know, it just reduces the debuffs.