Do you know if it was designed as an IAT(intake air temp) or an AAT(ambient air temp) circuit?
Sounds as if the latter if that's where they designed it to go, or was the systme possibly not originally intended for an intercooler?
I know that(all else being equal in oem setups I'm used to) by putting an IAT sensor too close to the throttle body on an NA system, you can run too rich at idle if there's any reversion cooling the sensor down. I log an IAT sensor at the intake of my carbed bike to see the reversion in this way(was an easy way to help get the right length of pipes on my bike).
So depending on your intercooler's [in]capability(i don't know what kind of temps it does or does not help reduce to), could it end up just pegging the resistance limit of the sensor out and be worthless as an actual sensor if put after the supercharger?
Was the supercharger system designed to be intercooled to start with? I don't know anything about their system, but TTS seems to have a good following and grasp in the go fast stuff.
There's alot more knowedgable then I here(like most everyone), so I'm sure you'll get steered in the right direction. Personally, I'm just looking forward to seeing this run.... wish it had more of a full fairing on it though.
Todd