Well, how to prepare depends on what you expect to get ya -- blown apart by winds, matchsticked by a tornado, drenched from above, flooded from the ground up, plastered by a falling tree?
You could get the full-on treatment I saw in doing search-and-recovery in southern MS post-Katrina -- houses blown apart by winds, then drenched from above, then swept off their moorings by the storm surge, blenderized in the Gulf for a while, and tossed back up on land in little pieces, somewhere else. Preparation for that kind of hit involves driving, running, crawling, or slithering inland as fast you possibly can, dragging as many of your animals as humanly possible. (The only coastal creatures that survived in the direct-hit zone seemed to be crabs and a few of the wild pigs. And we kept finding dead ones of the latter. Even the sea turtles were plastered, and there were many deceased turtles in the debris piles.)
For the more prosaic hurricane experience, I'd secure the coop to the ground with steel cable and long anchors, put the poultry in easily movable dog kennels or cat carriers and bring them into a garage or the house -- above grade, even if you think you aren't in a flood zone.
We live like 380 miles inland. I spent the aftermath of hurricane Ivan searching for a man who had been swept away by floodwaters after clinging to a tree for more than an hour. The town where this happened was completely inundated by a creek so small that I didn't even know it was there.