I find the best anti commercial tactic in the game are small submarine like mini carriers who basically find the pray and have a few beam fighters do the dirty work. They can practically operate and terrorize an area indefinitely, at least for a couple of years depending on the design.
I envision a "carrier" 6-10kt with 2-4kt of hangar space. Assuming 2kt of hangar, 2x 250t scouts (1 thermal, 1 em, can probably do a size 3 array on them), 4x 112t light fighters,
and 2x 500t 10cm railgun fighters. (or more tiny GC fighters and make the pair of scouts larger), and use thermal sig reduction galore on the engines
Scouts trawl around at low speed (low thermal sig) looking for thermal sigs that look like commercial shipping. Carrier sits ~5-10bkm out to launch and recover fighters. When targets are spotted, send out the fighters to take them out (if you can, approach at lower speeds so your thermals don't show up)