I ordered an Ipod Touch from Best Buy for my wife this past Christmas and I also got an empty box. Only packing slip and bubble wrap left. I did get a replacement without issue.
It's possible that your item could have been stolen also.
Just to chime in with a similar experience, I ordered a full PC build from Newegg a while back. When it arrived there was no cpu in the box (about $300 of the $1200 order). It was on the packing list, but not there.
Called them to complain, figured I'd just be screwed, couldn't have been more wrong. They overnighted one to me, no charge. Got it the next morning (a saturday!).
Sometimes companies manage to do the right thing, and turn a bad situation around.
Hope they accomodate you !
I've had a run in w/Atomic a couple times, doubt I'll order from them ever again.
Took 2 weeks to get a Losi Servo horn that was in stock, no excuses or explanation offered.
Another time I ordered Losi XXX4 body and it wasn't in stock, I waited a couple weeks but after that I requested a refund and they gave me shit about it. In store credit only. I said F-YOU, you dont have when website says you did. Gimme my F-in money back.
I retired from RC, now life is all about guns and long range shooting.