You have the right plan, bury them in documentation. Include a copy of all the stove manual's installation section and photos of the before location + a clearly labeled and drawn diagram of the proposed installation that includes proposed clearances.
I have a DuraVent installation (straight up thru the roof). Good pipe and easy to get. You can also see a comparative selection/pricing at:
http://www.ventingpipe.com/category.cfm?categoryID=160&source=ggsimpson
If you haven't already, download the Duravent installation guide documentation (and include that with the permit application).
http://www.duravent.com/?page=1a.php
I have a DuraVent installation (straight up thru the roof). Good pipe and easy to get. You can also see a comparative selection/pricing at:
http://www.ventingpipe.com/category.cfm?categoryID=160&source=ggsimpson
If you haven't already, download the Duravent installation guide documentation (and include that with the permit application).
http://www.duravent.com/?page=1a.php