That and the destruction of the mass relays is what ticked me off the most.I think one of the things that have been raised and that bugged me was that I was not given a option in regards to dialogue to show that synthetics and organics could live side by side.
I still picked the 'destroy' option anyway. Until/unless a better option becomes available, I choose to pretend that the Crucible fires before Hackett says anything to Shepard, shuts down all the Reapers throughout the galaxy, and leaves the relays intact while doing so. Shepard dies, but the rest of the galaxy survives and begins rebuilding. The end.