There are definite nutritional benefits to boiling peanuts, but if you're making traditional boiled peanuts, there's no doubt that you'll have to deal with the salt content. Some variants include peppers or cajun seasonings but traditionally there's always a heap of salt involved. The label of one brand of green boiled peanuts informs the consumer that one of these little guys represents an entire percent of your daily salt intake. A handful is definitely not a good idea for anyone watching their salt.
So, I'm going to throw out some ideas for alternative flavorings to the mighty boiled peanut. These aren't actual recipies, so any combining of these suggestions is experimental. Your mileage may vary, and good luck.
Getting rid of the salt, you might still want a savory taste for your peanut. You can pull that out with garlic, onion, or maybe black pepper. Jazz it up with herbs like rosemary, dill, or cilantro. Or just wander around a farmers market and make it up as you go with whatever catches your eye, or your nose.
On the other hand, if you're ditching the salt you could go all the way and boil your peanuts with sweet ingredients. Honey is a great natural sweetener. This also opens up a different area of seasonings and flavorings like vanilla or cinnamon.