I ended up wiring the Intelliflow pump to my manual timer but have no stops on the clock. That way I can shut off power with the switch if I need to but the pump is powered all the time as recommended by tech support at Pentair. The computer control turns on and off the pump per my program. I connected the Autopilot the same way to power and it stays on all the time but only generates when the cell detects water flow. I have had the system running about 2 weeks now and every thing is working great. I have 20k gal pool and I put a 60 cell on it. I am running power level 1 at 45% and my chem levels are great. I set the intelliflow to turn the pool 2 times a day and set 2 run times 6am to noon and 6pm to midnight. I have a kreepy pool cleaner so for 2 hours in the morning filter I ramp up the gpm to 80 to run it. The intelliflow calculates that 2hours at the higher flow so the first turnover in the morning is done about 11am or so but the pump controller knows the flow rate and knows when the first water turn is done. The pump runs at about 890 watts during the filter mode and goes up to 1400 watts during my 2 hour cleaning cycle. My old pump was running at about 2600 watts for about 7 hours per day. I am definitely saving on the electric bill and getting more filtration time and a more even chlorine generation. I am very happy with the setup.

Brent-Roberts the intelliflow has all the controls needed in it. no extra controller needed unless you want to control things from inside the house or spa side. It has backwash and Vac modes and special feature modes. I set up 2 features so I can hit the feature 1 button and it will run the pump at the flow rate I determined I liked and shut off after 30 minuets. The second feature I programmed runs my spa one hour and shuts down. It took a little trial and error to setup but it was pretty easy. I calculated my payback to be about a year after counting in a 200 dollar rebate from the power company.
Greg