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I have actually been considering that as the culprit, that OmniFocus is trying to sync before the network is fully operational. This may account for the issues on the iPhone as I run WiFi at home and at work, and the issue may be the iPhone reestablishing a WiFi connection after being in standby. Not too sure, though. Every time I have had an issue, however, the very next sync works fine.

I will need to pay closer attention to see if it is related to a "suspended" network connection.