I found out that some of them just don't exchange to other coins like dodge and LTC..even though its an option... same issue.. when I changed them to all convert to BTC then they all worked and went thru just fine..
edit** I am currently mining another pool right now because of better more consistent payouts on the coins I want to mine at the moment.. but this pool never gave me any trouble.. some of the oddballs I sent directly to cryptsy after they built up with no issues at all..
i havent had any issues with the pool other than the conversion and payout. but you are right, i might just have to convert them all to BTC.