EBay and Paypal double-dipping on fees is very annoying, especially on shipping. With the top-rated discount I'm paying around 10% total in fees for my sales... I imagine fees could get to 15% or more for casual sellers who don't get discounts. I actually switched over to free shipping for all of my lastings last year. I figured there was no sense in leaving myself open to lower feedback ratings on shipping price if I was going to get hit with eBay fees either way. Ultimately I think that move boosted my sales, so I guess it was a win-win for me.
I ended up doing the exact same thing...plus I was sick of people sticking it to me on combined shipping if they won multiple auctions. I never advertised that but people apparently expect it and at the rate they decide is fair, so it became tiresome quickly arguing with people over that crap.
The fees definitely suck but they way I look at it, I'm making way more off this stuff selling it there than anyplace else I could go, especially places like the local comic shop.