This is now resolved. One of the extruder stepper wires on the board was loose. When I tugged on it, it came right out of the connector. Additionally, I found the extruder drive gear to be very worn and seemed to be slipping. I fixed the connection for the extruder and replaced the drive gear with a newer and more aggressive one. That seems to have resolved this issue.
Thank you everyone for your help.

Best posts made by Wunderboy
-
RE: Under extruding after firmware update