Toomey with fmf?

Well any two stroke pipe is a certain specific length to aid in performance. A toomey is mostly for top end, and and an fmf is mostly for low/mid. So they are different lengths. However, this "length" only applies to the geometry of the header, after the expansion chamber, it doesn't matter how long it is. So I would say you're fine with putting the powercore 2 on, provided it all fits on and bolts in place.
 
I am unsure if the two are physically compatible but the slip on is a full flow, straight through design which should not create any unwanted back pressure.

The Toomey SST muffler may not be compatible though, they are usually sold as a matching system.