If running a Full Replacement, you must publish your full item range. If a range of items is select while running a Full Replacement publish, NRO will replace the storefront with only the information published in the file.

Check that the NRO Integration Agent finished processing the publish file. If the file has finished processing, the publish file will indicate the word, "completed." To verify the file has processed, in CounterPoint, go to Setup > Ecommerce > Control.  On the main tab is a setting labeled "Ecommerce directory."  Click on the hyperlink to open the CPOnline folder. Find the most recent publish file and verify the file has changed from processing to completed. If the file extension reads, "failed," contact Retail Hosted Apps Support at support.retailapps.com.