Yup. The caravan trader you've invested the most in will have the most money. Also, what I usually do is, to increase how much they have, I all their stimpacks (as we all know, you can never have too many stimpacks
) and other chems, until they have enough to buy all my loot.
I think the devs did a good thing by making it that way, it actually encourages trading, like you would do out in the Wastes. It's kinda strange how in Oblivion the traders money never changes, they fixed that here.