The Updates View contains a list of all the orders that have updates based on the configurations you have set up. Downloading order updates is not a common practice and requires special use cases.
If you have selected to update orders on preset conditions, then when Webgility detects the order has changed after downloading, the order will become grayed out in the order view. When this happens, go to the Updates View and decide what to do with the order and the updated information.
You can choose to ignore the update therefore leaving the order as is, or download the updated order right from the online store. If you choose to download the update and the order is already posted to the accounting system, you will be prompted to void out the original transaction so you can re-post it with the updated information.