I started having the same problem about 3 weeks after installing my FASS. Hard starts when hot sucks. However, I found that if I didn't have the FASS running when I started the truck, I didn't have any problems. I believe the problem is caused by the fuel metering diaphram moving too far when exposed to low fuel pressure and then cracking. The higher pressure applied to the cracked diaphram by the FASS or other aftermarket lift pump creates the hard starting issue. I'd try unplugging the lift pump from the harness when the engine is hot, and see if you still have the hard starting issue. Mine went away.
Since that was the case on mine, I now have my FASS on an oil pressure switch. It doesn't come on until I have 4psi oil pressure. I've been running this way for over 20k without any issues. Its worth checking if you haven't already taken the truck in, its something you can check for free.
Sean