How to manage order emails

As I have mentioned in the Magento order options section, Magento has a very nice built-in email functionality called Sales Emails which allows you to manage the emails you send to your customers when an order is processed. Before you configure your emails, you might want to add new email templates. You can do this from the admin area > System > Transactional Emails.
Now let's take a closer look at each of the options in Sales Emails:

Order and Order Comments - from here you can enable/disable email notifications your customers receive about orders and any comments you might have added to them. Here you can set the New Order Confirmation Email Sender, the New Order Confirmation Template (this will be used for registered users) and New Order Confirmation Template for Guest which will be sent to guest users. You can also set an email to receive a copy of the order email and select how the copy email should be sent - as Bcc or as a Separate Email.
Invoice and Invoice Comments - from here you can enable/disable email notifications your customers receive about invoices and any comments you might have added to these invoices. The rest of the options are the same as those for Order.
Shipment and Shipment Comments - this option allows you to enable/disable email notifications about shipments and shipment comments. Again, the rest of the options are the same as those for Order.
Credit Memo and Credit Memo Comments - from here you can enable/disable email notifications your customers receive about Credit Memos and any comments you might have added to them. Once again, the rest of the options are the same as those for Order.