My 83 LS also has pod filters, with Supertrapp exhausts and stock jets. I initially toyed around with replacing the jets with a larger size but finally decided against it. The problem was that the bike really didn't have a lot of power below 3500 rpm but past that it really picked up. I then played with the discs in the Supertrapps (they control the flow) and that helped a bit, I guess because of the back pressure difference.
In short, a larger jet size might have helped the low end but since I love how it runs at higher revs, why change?
This led me to believe that a free flowing exhaust will lose you some power, probably throughout the power range.