Applying a pledge payment in batch to a different constituent

We recently started using the NXT online giving form. We just had one of our constituents submit an online CC payment towards a pledge that is on her company record, not her personal record. We tried searching for the company to attach the pledge payment to, but then it created an additional gift of the same amount in batch prior to approving. How do we get around that, or did we miss a step. Once we found the company record, we did get the option to apply to pledge, but that is where the additional amount came in to play. #newbiestobatch