I'm no expert, but I'd think it's worth doing, especially if you have anyone in the house with allergies or health conditions that are affected to mold.

We had a huge mold problem in our basement earlier this summer (due to groundwater seeping in slowly through the walls. No leaks, no floods, just high humidity over a long period of time), and are having the entire basement redone. The mold remediation contractor found a lot of mold hidden underneath the carpet, since it stays perpetually damp, and there's plenty of "food" for the mold.

I read an article that said carpet should only be installed in the basement if there's adequate "subflooring" or "underflooring" installed. Carpet laid directly onto the concrete will almost inevitably result in mold and the musty basement smell. For what it's worth, we've decided to do away with carpet entirely, and are looking into a waterproof vinyl floor.