@Sammy2,
Hmmmm... No ISY Settings? Is this the most recent firmware for your Autelis or do you still need to upgrade? mda has 1.6.8 and the Autelis folks are making some additions as well.
I'm updated to 1.6.9 last night while finishing the set up. That was the initial settings. There's ISA/Vera control now.
In my haste I had to connect the Autelis via a wired connection out the window of the office to the rear patio and had to also run a long 4-wire speaker cable to the Jandy board. In connecting this, some of the One-Touch and Spa Link wires became disconnected. This morning I was working on setting up a TP-Link AP and couldn't get the dam thing to connect to my laptop via ethernet.

So that issue remain to be resolved. I don't have a whole lot of time to fuss with it and it should just work but it isn't just working!
At any rate, to keep the WAF high, I spent half an hour this morning disconnecting everything and returning the pool back to the One-Touch control because the nieces and nephews are coming over for the last Thursday pool party of the Summer before School Starts and the pool has to work.
But after a couple of failed attempts I did get the Vera connected to the Autelis and I was successful last night. My wife was out of town with her mom for her mom's birthday and it was already getting late (I'm up at 4 am to get to work as I have a 2-hour commute, which explains my limited tinkering time) and she came home so I had to then drop what I was doing and visit with her about her adventures so I have nothing to report back today. The next chance I'll have to tinker with this is probably Saturday Morning..
EDIT:
As far as pumps go, there's three; I'm thinking Pool, Spa and Booster or Cleaner.
I also have only two valves that are connected to the Jandy via relays. I'm thinking Shear Decent and Spa Flow Control as when the spa is on, the cascading water spilling from the raised spa into the pool stops and all circulation is in the Spa only.