You should not run into any problems with Now Commerce when upgrading to a newer QuickBooks product or version.
Because the QuickBooks Web Connector, the Now Commerce Order Bridge, and the Now Commerce Ship Bridge are all tied to a specific QuickBooks company file name and location (e.g., C:\Users\Jon Doe\Company Files\OFB Distributors.QBW), it’s important to ensure that the QuickBooks company file name and location remain unchanged when upgrading.
Now Commerce Support 