I thought that might be the case, but there are two issues:
- these were pretty much the only on foot missions that don't involve either combat or breaking the law, apart from very basic fetch quests which are on about the same level as killing rats in some old lady's basement. For those of us who don't want to play as gung-ho criminals removing them is quite limiting on what's left to do.
- they're now too hard to find. Unless you happen to come across one by chance, you'd have to know of an offline settlement and find a mission board for the faction that owns it - and there's no good way to find offline settlements (I did suggest back in the Alpha that offline status should at least be shown in the system map). Flying over each one to see if the lights are on is not a serious prospect.
Also, what's wrong with a faction hiring someone to do something at another faction's base? Plenty of ships missions involve a faction hiring you to interact with another faction, for instance delivering them some cargo. I don't really see a problem, although obviously you'd want to make sure the two aren't at war or something.