If you are building a new store and adding products quickly, not all of them will fully update and you might see a different product count compared to your freshadmin Categories page and your live store category page.

If your store isn't live that will also affect the speed the products update and the product count might not match up. As your store is set to live and you start getting traffic and people are visiting the product pages, then they will start to update and show on your live store

If you would like to see all the products live on the store, you can enable the "Products Without Offers" parameter and it will show them live on your store.

 Freshadmin - Tools - Change Paramaters - Products tab.

You need to make sure the 2 parameters shown below are turned ON

"Display Products Without Offers"
"Display Amazon Link for Products Without Offers"

Below you will find links to some other articles that relate to this one. 

Going Over the 90 Day & 24 Hour Amazon Cookies Feature

Fresh Store Instant Error Message API Requests Throttled  

Items That Cannot Be Added to the Active Amazon API Cart Area  

Common Fresh Store Instant (Fresh Store Builder) Questions

Adding Product To Shopping Cart Fails

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