Its a pretty common belief that aerating after a pre-emergent will "break" your pre-emergent barrier, thus ruining your pre-emergent application.
Good news...thats a myth. That is not just from our own experience, there have been numerous studies by universities across the country that have shown there is no difference in weed breakthrough when an aeration is performed after a pre-emergent is applied.
So don't be afraid, aerate away!