As long as the Lilipup could have been caught legally with those IVs (etc.) it should get through Pokebank, and if it does that it won't affect anything in your X or Y game.
If pokebnk doesn't consider it legal, then it will be rejected and simply stay in your PC in Black, but there are no further ramifications than that.
Source: Experience - I have both transferred hacked Pokemon and had hacked Pokemon rejected.