Hello @worsin
Hope you ‘re doing well!
Please clarify what Widget you are using on your site? I’ve tested the “Product Category” widget and can’t replicate the issue, all Woocommerce categories are shown.
Please run a quick test to check if the widget is working with when all other plugins deactivated. Leave the WooCommerce active and check if teh widget is working, if yes, please activate the Custom Sidebars plugin and check again. If everything is well, please activate one plugin at the time till you find the plugin that is causing it.
Let us know how it went!
Kind regards,
Nastia