So i think that the IAT is on the bottom of my intake box right? Well if that is so then mine has not been in for al ong time and i have never found out until today? Has this affected my engine in anyway at all?

You've had inaccurate IAT readings. Most likely hot, which will lean out your fuel mixture. Bad for acceleration. It can have a positive effect for highway cruising. Similar to when my fuel pump was losing power when it got warm. My highway MPG went down 2 or so when I put a new pump in and was actually meeting my fuel demand. Don't forget the half inch un-filtered hole in the air box.

IAT is up by, or a prt of, the throttle body. Ain't it?

I dunno, i think it is though? what ever it is has been unpluged and hanging in my engine bay for a while!

IAT goes into the airbox...

Are you thinking of IAC?

Yep, there is a hole in the back side of your airbox.

so with it now put in the right spot my MPG will go up some? BUt nothing really bad will have come from this?

Being lean during hard acceleration is bad. Causes knock.