I agree, after experimenting with the HE fans on my Whipple 2012 GT, I really didn't see any benefit to having them. I was planning on getting an upgraded HE on the Shelby before the weather gets hot and after reading through the above link from Dept of Boost, I am not going to get fans on it. I was really curious what everyone's experiences we're without fans since the only setup I had was with them.At low load when the by-pass valve is open, your intercooler isn't all that relevant anyway. Air is circulating through the intercooler and up through the by-pass valve, and re-circulating again. You're just not going to notice much cool down through the intercooler in that scenario. I do think you need to be circulating coolant through the intercooler system. Coolant does need to circulate through the HE, so you need a functioning pump and no air pocket in the system.
Once you get over 15 mph, airflow through the HE core is surpassing what the fans can suck through the core. Unless the by-pass is closed (WOT), I think monitoring/logging IAT2s is pretty much a waste of time.
Circulating coolant through the intercooler brick, absent any airflow (engine off), isn't going to do a great deal to cool down the intake and the supercharger. I just don't think fans are quite the benefit they're made out to be.
The video I referred to earlier is not working, but it's worth a view when it is available. I am going the big core, no fan route. I'll post up by observations once we get into the heat of summer. Without fans, the HE can be placed closer to the condenser to get the benefit of some airflow using the radiator fan.