I don't think the agents are all that sophisticated, but if they notice you doing any funny business, you will get the third degree. So don't try anything.
If you're that concerned, make sure it contains nothing but Free (libre) software. Then you will be able to prove your innocence.
Let me say this a different way: having any media on your machine whatsoever is now "funny business". If you have movies ripped to your laptop for your kids to watch, as I do, then you can legally be held under suspicion of piracy, and your property can accordingly be confiscated. The burden is on you to satisfy whatever requirements the government may have for the media.
Remember, in this case the burden of proof is on you. Somewhat similar to the way the BSA does audits (or the IRS for that matter).