If I sent an estimate and it was agreed, the customer then pays a deposit, do I need to generate a new invoice ? Or can I split the invoice to show deposit ?

Welcome to the Community, Hayman.

I'll help you track the deposit for the estimate in QuickBooks Online.

In QuickBooks Online, you can set up a deposit or retainer process for your company. When you receive a deposit or retainer from a customer, it is treated as a liability to indicate that the funds are being held by your business but do not yet belong to you until they are used to pay for services. Once you invoice the customer and receive payment against it, the liability is converted into income, reflecting the actual revenue earned. This process ensures accurate tracking of funds and helps maintain proper financial records in your business.

To begin, you will need to create a liability account in QuickBooks to track the amount of retainers received from your customers. Here's how you can do it:

1. Select Settings ⚙, then choose Chart of accounts.
2. Click on the New button to create a new account.
3. Select the Account Type as Other Current Liabilities.
4. Choose a suitable detail type for the account as Trust Accounts - Liabilities.
5. Enter a Name for the account (for example, Trust Liabilities) or accept the suggested name.
6. Select an option from the When do you want to start tracking your finances from the is account in QuickBooks? dropdown list.
7. Select Save and Close.

Then, create a retainer item. Follow the steps below.

1. Select Settings ⚙, then select Products and Services.
2. Click New.
3. From the Product/Service information panel, select Service.
4. Enter a name for the new product or service item (for example, Retainer).
5. From the Income account ▼ dropdown menu, select the liability account created in Step 1.
6. Select Save and close.

Proceed with the steps 3, 4, 5 and 6 from this article: Record a retainer or deposit in QuickBooks Online.

For future reference, I'm also adding this article to help you record invoice payments in QuickBooks Online: Record invoice payments in QuickBooks Online.

Let me know if you have questions about recording retainer or deposit in QuickBooks Online. I'm always here to help. Have a great day.