It's happening because the ships being spawned as part to the side missions in the zones are spawning clean. Then cops are thrown into the mix. Some standard ships also lack the lawless tag, so therefore register as an assault if you shoot them or a murder if they happen to pop.
My thread is recent about this problem too, however a couple of people haven't taken my complaint too kindly because I've expressed a degree of distaste for FD being notorious for not play testing their own game with respect for the anticipated release by the player base.
They take our money quick with all the cosmetics on top of a fully paid for game, so they should be a touch more meticulous in my opinion when they are the one setting the release dates following extended betas where you guys do the testing for them.