(assuming you're talking about removing the pipe from the manifold, and not the muffler from the pipe...)
If it's really really rusted together, chances are the pipe has weakened enough that you're not going to get them apart without some damage and/or it's not worth trying to save it...
But if I were to try - I'd use a large pipe wrench on the tube, placed down close to the manifold to eliminate as much flex as possible in the pipe. Probably use a 3 foot piece of 1 1/2" pipe as a breaker bar on the handle of the pipe wrench to give you extra torque. (Make that bar long enough and something's going to give somewhere.)
Drench it with penetrating oil.
The problem with heating it to loosen it is that the pipe is so thin in comparison to the manifold that they're essentially going to expand and contract together. You could try running it for a while to heat everything up, then maybe jam a wet rag on a stick down there afterwards to quickly cool the pipe to shrink it a bit, separate from the manifold itself.
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Today's Featured Article - Identifying Tractor Noises - by Curtis Von Fange. Listening To Your Tractor : Part 3 - In this series we are continuing to learn the fine art of listening to our tractor in hopes of keeping it running longer. One particularly important facet is to hear and identify the particular noises that our
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