I had the same problem and had to call support. I learned this is another of Intuit's "upgrades". 

In the Deposit window, click on the dropdown arrow in the Account field. For me, the bank accounts populate plus there is a link to: See and Add More Categories. Clicking on this link opens a popup to the Chart of Accounts categories. Click the correct category; Income, Expense, etc. From there the user must hunt and peck for the correct account, including opening more lists for subaccounts. Once the user finds the correct account they must highlight it/check it off, scroll to the bottom of the popup window and click the green Select button. 

I have concerns about this change:

1. Users do not understand the popup leads to the existing COA and will add new accounts in an effort to record their transaction. This is the very reason this thread began.

2. Previously I was recording the account number or account name to populate the Account field. This new process adds 6 to 10 times the time to record a transaction due to all the clicking and searching involved, just to record an account in a field. 

3. Changes like this show the true disdain that Intuit has for users. User are left with not understanding and ruining the COA or wasting billable time stumbling through an unnecessary process. How do you justify this, Intuit?

Intuit, the poor planning and design are truly exhausting for everyday users. The time has come-users are seeking competitors and I am right there. I just can't take it anymore.