It seems like you were asking your question at the stage in your process where you have just completed Nitric Digestion of all other metals except lead and gold? If you have gold foil in the leftover material that didn't go into solution, is that right? You might not have used enough Nitric Acid to consume all the metals it could. That material could be anything that was included in the rolled/alloyed metal you put into the nitric to begin with. And if this is not at that stage, but after AR, then you didn't use enough AR to fully digest the gold into solution, you wouldn't have foils if you did. If this IS right after the nitric reaction, and before AR, then it shouldn't have any gold in solution at all, nitric acid reacts with gold, but it doesn't consume gold, but it's good to check just in case something else is going on that you haven't figured out yet.
I might have misunderstood you though, I am trying to follow the thread and comment on points not mentioned yet, but if I am wrong, as usual, someone please call me on it.
You mentioned you were using shop towels, are they colored shop towels? Like red? Because anytime those come into contact with NOx, gas, or certain acids, they turn a deep purple color. I use them so I can tell easily what is contaminated or not, not that I rely on it but it's shocking how discolored one will get, when you thought it was clean. I got the idea from a special tape I used when I made the nicoderm patch for Johson&Johson. We had to wear fully enclosed, silver lined positive air flow suits because one drop on pure liquid nicotine on your bare skin would send you to the hospital, and could kill you. For all the zipper joints, and wrists etc, this blue tape was used so that if you got nicotine on your suit, it would discolor and you would know you had to wash that area down real good before taking your suit off. It's possible that if you are using shop towels that they are reacting with whatever chemicals you are using at the time, and that those colors you are seeing have nothing to do with anything that is in the solution.