Had the same problem with my '07 SERK on delivery, only I discovered a 'SMALL' 100th Anniversary cover inside the drawstring sack, and being a (former) believer in the infallability of anything the MoCo or any of it's underlings does, I tried placing the cover on the bike. Hmmmm, seems way too small --- I'll bet you have to take off the quick attach windshield so it'll fit. Hmmm,Hmmmm, STILL way too small --- maybe the saddlebags need removed as well!
And then the light appeared in my fuzzy little brain --- THEY SCREWED UP!!!!!
The dealer got me the right cover -- at least I think he did -- I just realized I never removed the replacement cover from it's outer storage bag. At least it says CVO on the bag!