Wrapped boxes of cigars sit in distributors humidors, just waiting to be shipped ... sitting wrapped and boxed in your humidor is simply a continuation of that process ...
Consider, though, that the wrapping and the box are barriers that serve to preserve the moisture that is in the cigar at the time it is wrapped/boxed ... conversely, they can also PREVENT that moisture from being replenished ...
In short, keeping them in the box/wrappers in your humidor will keep them from getting "worse", but will allow them to get "better" at a slower rate than if they were unboxed/unwrapped