Declare HPOS compatibility in your WooCommerce plugin. Add this code to your main plugin file.

your-main-plugin-file.php

<?php
/**
  * Declare WooCommerce HPOS compatibility
  */
function yourplugin_declare_hpos_compat() {
	if ( class_exists( \Automattic\WooCommerce\Utilities\FeaturesUtil::class ) ) {
		\Automattic\WooCommerce\Utilities\FeaturesUtil::declare_compatibility( 'custom_order_tables', __FILE__, true );
	}
}
add_action( 'before_woocommerce_init', 'yourplugin_declare_hpos_compat' );