Alpine Start Outfitters review for Stocky

I tried to do an inventory count for our store using stocky. It went relatively smoothly which was great. Only issue is that after I had completed the count and performed the stock adjustment it did not correctly adjust and now I have a whole bunch of negatives in my inventory I am going to have to adjust? Has anyone had a similar experience? Is there an easy/ efficient way of correcting this issue? Thanks in advance.