Yes there is a batch - autoit file around, also to prevent this you can use FP as a shell (check the FAQ emporium for more ditails) or you can untick "keep the task bar in top of other windows" and "lock task bar" in task bar properties.
I couldn't find that autoit patch. I tried using skinbedder and igmod. Both will not give me a desirable result. Now FP won't embed Iguidance the same way it did before (above). Now it starts IG as an external app plus that annoying Warning window is popping up in FP and it didn't before. Please help.