Wait, being empathic is now a negative trait? I'd hope we would want our first generation of superhumans to be too empathic, or else they might exterminate all of us of inferior breed.
You would want that, but that choice may not be possible. There are some known genes where you choose between social skills or memory. You cannot have both as it is the same gene.
In addition to the factors mentioned in the sibling comment, empathy can often lead one to make the wrong decision. (Where by "wrong" I mean any decision other than the one best supported by one's rational analysis.)