hmm, I thought the targeting synchronizer (abbrev. TS) might make the punisher much better in comparison to the bomber, but the more I wrote about it, the less I was convinced.
But what I am sure about is that TS will solve the Punishers problem with getting a TL before the first round of shooting. You can use other Torps/Missiiles than Homing as well, as you can use the TS to shoot and the FCS to modify the attacks from round 2.
You could use the boost to get in range for Cluster Missiles (which would raise the point costs, but I guess using different ranged secondaries is the only concept that the Punisher is better at than the Bomber as the boost offers better range control) or modify both attacks (1 by a focus token and 1 by FCS in the second round of shooting).