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Here's an image of the APIM.
The USB hub coax cable plugs into the "blue connector" on the APIM module. There's no circuit protections on/for the USB, and is direct cabled to the APIM. If the hub is dead (replacement didn't correct the issue) I'd be suspect of the module. My replacement APIM with Sync 3.4 works fine. I went from Non NAV to a NAV APIM system. Screen colors/layout are like the newer F Series trucks.
If fact, when I bought the truck new, Service "Would not" program a replacement NAV APIM for my truck, only a Non NAV like it came with. The NAV APIM has much larger storage capability for Maps etc.