I was a little concerned about that too. I just lightly pulsed them in the food processor, and didn't get much breakage of the pits. When I racked it to the secondary, not much came through the racking cane, and I didn't have any blockage issues, during the transfer.
Primaries -Traditional Bock, Bitchslap Pilsner.
Secondary - Several Hard Ciders, Czech Pilsner
Bulk Aging - Brewtopia Barleywine