In a game today, I was playing against a few computer opponents and during the fight with one of their larger fleets, I set my ship production worlds to rally to the enemy system that the fight was taking place in. A few minutes later, I pulled back to the system's star, which was one jump away from the hostile fleet and the location that my reinforcements were jumping in to. I changed my production planets' rally points to the star instead of the hostile system they were first set to.
This is where the problem began. Even after I changed my rally point to the system's central star, my reinforcements kept transiting to the enemy system anyways. I manually drew them back, but the reinforcements kept going to the enemy system.
Now if my rally point is set to a system, there should be no reason for my ships to march merrily to their deaths at the old rally point right? Why would they do this? Are they automatically joining the new reinforcement-only fleet and saying "there's a ship from my fleet in the enemy system, so I need to reinforce them there"?
I had this problem on an earlier game too... where I would give an order to a single ship to jump to another system, only to see my entire fleet follow suit. This is really frustrating!!!!!! I just want the damn auto-fleet feature and fleet AI to leave my ships alone!