I do like this idea. Currently the Genders are pretty pointless as so many people consider Attract a cheap move it is banned in a lot of battles.
This way, perhaps for a reduced cost or maybe even free if other restrictions are applied (the pokemon in the breeding center cant participate in a battle for a whole week etc), two pokemon in the same Breeding pool can be placed together with both participants receiving an Egg of the Female in question.
Perhaps limit it to only 2 Breedings per player a month, maybe the Breeding center only has room for so many couples etc.

Its perfectly do-able and could be used as an alternate for the Refs getting free Evo's. ie Standard members get a free trip to the Egg center after every so many battles. Refs would have to pay 1 point. Without trying to get this back to the whol business way it was the only objection to this currently is that as mentioned, everything else is already so cheap.