In case someone doesn't know: Repairs on your ships can only be accomplished with the supplies that are left after all other needs that count towards LR (crew, maintenance, over capacity) have been satisfied. In other words, if all your Logistics Capability (the blue bar) points are used, you can do (almost) no repairs. "Almost", because emergency repairs for 5 supplies/day are always possible, more with skill bonus.
The direct effect of this is easy to spot, it discourages you from using all your logistic capabilities for ships. But why that is a desirable effect, I don't quite get. It's not as if it would be a real alternative to invest skill points into more Logistic Capability only to get more repair speed, not while other skills/using more ships offer much better revenue.
After all, it is quite the complication, it would be far easier to understand for the player if ships would just repair as fast as they can, like they regenerate CR. So, I'm sure there is a good reason for this, I just don't see it yet.
Alex? Anybody else got an idea?