This was probably a good decision, given how it's relatively easy to blow up a ship with a couple bomber squadrons or other capital ships. In the full campaign, you probably won't ever launch a hit-and-run with only a few Y-Wing squads; a hit-and-run raid fleet will probably contain enough forces to destroy a few enemy ships before retreating. Instead of causing many ships damage, you destroy a few...the net effect is the same. That "giant wipeout fleet" may not incur persistent damage, but any ships lost will be remembered--imagine if the fleet encounters a dozen Y-Wing squads on each planet it visits, and loses a Victory Destroyer each time it invades. The attrition will still build up. I'm sure this won't impact the strategy or enjoyment in the full game.
Darth_Torpid, thanks very much for your continued involvement!