Thanks for your response MicheleBh.  Have already done everything called out in your response and in the articles.  No change.  To be clear:  The ACH transfers match to the invoices just fine, but don't clear from the Merchant Service Deposits window and, much more frustrating, the Deposits remain in the Make Deposits window until I manually clear them, which is a time consuming process as they have to be batched properly so as to make reconciliation with my bank account correct.

After so many hours on the phone with tech support I have already done all of the easy troubleshooting items (like changing settings) and many of the more complicated ones (like numerous updates and changing my Merchant Service password).  Nothing has worked.  I need to move past the straight forward technical support as it has been ineffective and time consuming.  I can provide trouble ticket numbers, if that's helpful, to see what's been done so far, but what I really need is a level of support that can address this issue.