Using Flightcheck, is there a way of collecting links that are on a hidden layer?

I have a jacket file in ID in which I have a spot gloss layer as the top most layer. My typical workflow would be to hide that layer when I save it, so that the designers don't mess with it when they go into the files. Problem is when I Flightcheck and collect the job, the links on the hidden layer appear in the image panel of Flightcheck, but they aren't collected. I have searched around in Flightcheck looking for a preference or something that would allow me to "collect hidden artwork", but no luck.

I know I can do this in ID by packaging the file, I juts prefer Flightcheck so I am hoping to find an answer.