Erick,
You want the muffler downstream of the blower outlet, so it'll work much as a car muffler, smoothing out any surges in airflow caused by blower blade passage. On a car motor, pressure spikes and valleys are caused by exhaust valve openings and closings, respectively.
If you're going to use ClearVue's curved transition, then the most practical placement seems to be at the exhaust end of that piece, though there's no reason it couldn't be placed right at the blower outlet. Just depends on how you scheme your filter placement. Steve (Woodman) placed his, which he described as made per the recommendation on Bill Pentz' site, at transition outlet:
http://www.gallery2.clearvuecyclones.com/v/CV1800+and+CVMax/Steves-Cyclone/Picture_015.jpg.html
An example of a different installation, with some rather large changes to ClearVue's "default", is John Randle's. He mounted his blower in the attic, away from the cyclone body, and also used his attic to place a muffler in the return ducting between blower outlet and filter inlet:
http://www.gallery2.clearvuecyclones.com/v/CV1800+and+CVMax/rand4723/DSCF1563.JPG.html
I seem to recall there may be some more examples in the gallery, but with these two, you'll get the idea I'm sure.
Regards,
DWD