First, let me welcome you Hizi, ahm Haso, ahm Huiboo, ahm... ah, Blood Dragon in the harsh and unfriendly world out here.
Yes, the space is dangerous and very often unlucky incidents take place. If we would move into any war every time, well, noone of us would be here.
So you have had the pleasure to meet the Harvester and it was a lesson for you to learn.
Now notice this: Junker bases are free for everyone (even Xenos and Hogosha in our interrogation chambers) and if a group is around Yanagi, hostile to you, simply wait until they are gone before comming closer. Try it, it works well.
You may call to arms against Junker. Fortunately the decision will be made by commanders with more wisdom, which can see more, than black and white only.
Nevertheless, a Hacker, who is changing a bit in the Harvesters program would be nice. So they follow base commanders orders not to act agressively in the safe zone.
ps.: oh wait, i'm not a member of JC. So ignore if you want.:$