Yes, I rewrote the combat resolution recently. One of the results of this is that a combat doesn't necessarily destroy a ship. Instead, ships can be damaged by the battle, and it might take a few turns of battling to fully destroy it. If you check the ship's health in the fleets window, it is probably reduced from what it started with.
Ha, interesting, I like this.
Also, you may notice that if you park a combat fleet over an enemy planet, there will be a few turns of battle, and then the planet will be destroyed, rather than captured. I need to fix that...
Wow, I just tried this and actually wiped a planet out of existence:
The display of resource sharing doesn't get updated though.
edit: Odd, after rejoining the game(autosave) it was gone, but fluel supply dots remained.
edit2: And when leaving the system, the resource sharing indication comes back.
I've attached a savegame, right before battle.