In order to allow backorders on the website and to keep the stock synchronised you must allow Sage to have negative stock amounts and set each product on the website to allow backorders.
If both are enabled then the website will reduce stock beyond zero (i.e. negative) and will therefore match Sage when orders are allocated and the stock update process doesn't need to update the website (unless stock has changed elsewhere).

If backorders are allowed on website products, but Sage is not set to allow negative stock then orders for item that are out of stock will be processed, but such products will be partially allocated.
Sage Settings
The allow negative stock in Sage carry out the following steps:
- Login to Sage as Manager
- Select Settings from the top menu
- Select Company Preferences from the dropdown
- Select the Parameters tab
- Tick the Allow Negative Stock checkbox (see below)
Website Product Settings
To change the backorder status of a product on the website carry out the following steps.
- Go to the relevant product in the WooCommerce backend via the Product menu in the sidebar
- Select the product to edit
- Scroll to the Product Data section
- Select the Inventory tab
- Click the Allow Back-orders? dropdown
- Select Allow or Allow, but notify customer (displays a message in the frontend indicating the item is on backorder)
- Click the Update button

If you have a lot of products to update use the WooCommerce product import and export features.