Hello there, jdomingue04.

Welcome to the Intuit Community. Let's get this sorted out.

If you're referring to the invoice and sales receipt transactions, these transactions may be recorded as Undeposited Funds. The reason why you're not seeing these on your employers bank account. 

Undeposited Funds are funds you have not yet deposited in your bank. This holds the records of invoices payments and sales receipts so you can group them together and deposit them into your bank. This is a default account automatically generated in QuickBooks Online (QBO). 

To understand more about how Undeposited Funds works in QBO, you can check out this article: How to Use the Undeposited Funds Account to Receive Payments.

Should you have follow up questions about this, please don't hesitate to drop a reply below. I'm always here to help.

My employer has been buying things he needs on jobs and I would like to match them up with the transactions on his bank account that way there is no double entry.. or should I just put them in there with out matching the bank account with the receipts?

Hi there, jdomingue04.

I'll help record these transactions and get them matched in your bank account.

You'll have to create an expense transaction first to avoid double entry.

Let me show you how:

1. Click Create (+), and then Expense.
2. Enter the information needed in the transaction.
3. Click Save and close.

Once you're done, match these transactions in the Banking section. The steps are outlined in this article under "Match downloaded transactions to transactions in QuickBooks Online": 

Add and match downloaded banking transactions.

You might also want to check out this helpful article: How to pay for business expenses with personal funds.

The Community is always here if you have other concerns. Feel free to swing by.