David,
[quote user="David Day"]The PCIE should be commented out and removed.[/quote]
Yes, I know that. But as you have problems with the custom board, I want to check where exactly the flow stuck.
In general, when one software works in one board (i.e. J5Eco EVM) and the same software doesn't work in other board (J5Eco custom board) then this is indication of bad hardware design. Thus you should double check you HW design of your custom board.
Best Regards,
Pavel