Re: Very late swarm or possible CCD???
Impossible to say based on information given, which is there's honey in the hive and there used to be bees. Now there aren't, why?
However you should do a check of any existing brood to see if the problem was AFB. AFB is rare, but a dead hive should always be checked for it before reusing the gear. In case it was varroa mites, ( likely, sounds like you didn't treat ), don't transfer gear from this hive to any other hive while there are bees still alive. Kill the bees, leave things a week or more for any mites to die, then you can transfer equipment.
Re storage, keep it in a shed exposed to the cold, which will stop wax moths and other pests. Protect it from mice though, who love to make a nest in empty combs and do a lot of damage. The honey can be used as feed either for winter, or next spring. If you store it overwinter it will likely granulate in the comb but the bees are still able to use it.
"Thinking Inside The Box"