Terminals 1&2 are power input to the Poolpilot not outputs. The top drawing turns the pump and pool pilot off and on at the same time. Terminal 3 is a legs of relay that connects to termials 5 when program tells it to switch.
Same with terminals 4&6. There is no power at 3,4,5,6 in the first drawing. The second drawing has power input on terminal 3&4 with jumper to terminals 1 & 2 to power the Poolpilot.
Hope I didn't confuse you more. Poolsean might chime in with a better understanding.