Is it okay to have duplicate products coming from two different feeds? Shopify App API and Local Feed Partnership.

I have two primary data sources - Shopify App API and Local Feed Partnership. Both submit the same products with the same Item IDs, resulting in two listings per product. One is always eligible (in stock online) and the other varies depending on whether the product is available in store. So in the end I have about 2,000 products but they show as 4,000 in Google Ads because every product appears twice, once from the Shopify API feed and once from the Local Feed Partnership.

Is this how Local Feed Partnership is supposed to work, or should these two entries be merging into a single listing? Anyone dealt with this setup before?