While this would be considered an dual agency situation, there are specific laws and rules in Illinois to ensure both clients agree to the arrangement and are protected.
The long and the short is your Realtor represents you regardless of if they are with the same agency. And as the buyer, you have control of what you pay. You need to trust your Realtor. And if you suspect cause that you should not trust them, then you need to discuss with them.
You are the decision maker.
Look at it this way - this is a place you're considering spending the next several years of your life in, there may be a thousand or two incentive for agents involved; then, again, there might not.
A better question might be, "Do I think my agent would zitz me over on a deal for $1000?" We don't know the answer to that, but if you thought they would, maybe they shouldn't be your agent in the first place.
All the best,