It would be cool if you could color code wires so that it's easier to tell them apart in a large project. Just a neat wish though.
It's pretty hard to imagine this when Logisim already uses a broad range of colors to indicate different values that wires might carry. However, one very different approach to the problem is to modify the poke tool so that when you click on a wire segment, it draws all connected wires with particularly thick lines - in addition to the already-existing pale-yellow rectangle it draws indicating what value is being carried along that wire. Admittedly, this requires that you actually poke the wires rather than simply look at the circuit; but, like I said, the color-coded approach has its own problems. The poke-tool thick-wires approach has been implemented for version 2.2.0, which I anticipate releasing around May 19.
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