Is this version 3.0 or 3.016?
I was under the impression that the munitions boosting lines had been entirely removed, but I see that they're back in 3.016. Turns out there's now a settings option for this, so if you'd like, you can disable the lines and get a pretty decent performance boost. The setting is in the Special Effects section of the Graphics tab in the Settings menu. Without the lines, you can still use tooltips or ship hue (when not in icon mode) to see whether a ship is getting boosted.
Does that help?