You might have started the K-1 section for the 1120-S, in which case you can easily delete it in the program using the Delete button (take care not to delete the K-1 for the 1065).
You also might have a phantom K-1 in your file which you can delete using the instructions at the link below.
https://ttlc.intuit.com/community/using-turbotax/help/how-do-i-delete-a-k-1/00/26655
