For one (and only one!) of my characters, if I have a target selected and activate an ability (BOFF or captain) the target is reset. In other words, I can be shooting at one ship, go to activate an ability to improve my chances of destroying the enemy vessel, but lose the target. Essentially, I need to remember which ship I had been firing on.
Anyway, people tell me to use Science Team. This doesn't help. It happens when my ship has no debuffs on it.
This only happens with one of my characters so it doesn't seem like it's a problem with my settings (I've also gone through the settings and haven't seen anything relevant).