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The extension MB Custom Table helps you to create a custom table and support to save the post meta (fields) which is created by Meta Box easily.
And you can also save any post meta to the custom table but WooCommerce or other plugins have its own procedure to save its own meta to the database. For example, WooCommerce saves the product meta SKU, Price, Stock Quantity ... to the table
So if you want to save this meta of Product, you should create action and fire when WooCommerce saves the meta and save it to the custom table.
Here are some guides for you