The suggested answer works but with a couple of noted exceptions. If the project root folder is on a network drive and referenced via a UNC path, a pop-up still appears. This defeats any automation. One option to work around this, is to map a drive letter to the UNC path and then use the drive letter in the reference to the project root folder. Using \\server\folder\root as an example for the project root, map F: to \\server\folder and then use F:\root as the project root. The dialog will not appear and the packaging can continue unattended. Mapping a drive can be accomplished in the batch file using the net use command. Also, it was determined that if single-source sign-in is used, it is not necessary to supply a user name and password.
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