From memory, the PD chip is only meant to power the second USB-C port (not the board) and it only does that if you bridge the middle pad (which is connected to the second USB-C port's V+ lines) to the PD's output. If you want the USB-C port to not do PD / only supply 5V (from the board's 5V supply) then you need to bridge the middle pad to the other side.