From doing pottery, I've learned that the term for this is "crazing" and it happens when layers don't shrink at the same rate. So if you have a bowl or a mug and you put the glaze on, and the stoneware mug shrinks faster or slower than the glass glaze, you get the cracks.
The same applies to models. The curing of the paint/future can lead to one not shrinking/fitting at the same rate as the other. Rapid temperature changes can also cause this. It could have something to do with the humidity as well-- as this can effect the way the future dries. Have the models been through rapid temperature changes?
I'd recommend trying out thinning the future 4 parts future, 1 part 91% (or higher) Isopropyl alcohol (which is also a great thinner for Tamiya acrylics). Don't bother with the 70% stuff.
Future sort of disolves itself and fills in cracks in it's own finish. You can likely put another coat over the crazed surface and it might correct it. The worst case scenario would be that you'll have to remove the future, lose the decals and have to do that again. Windex will remove the future. Just spray it on like you're cleaning a window and wipe it off 30 seconds later. It may take more than one application.
Also, search the forums for this as well-- I'm sure you'll get further advice.
Nathaniel