Not to derail this (definitely important), but another major thing we need to discuss is Cryptsy.
Most of our current trading is done through cryptsy, since they provide an API that lets us do (almost) everything we need to do (deposit, check balances/prices, trade). The only thing that has to be done manually is to withdraw BTC each day for payouts.
They've however, gotten slower and slower over the past days, to the point that we have ~2btc in Elacoin that still hasn't shown up (>1500 confirmations), and ~4 btc in Dogecoin that haven't shown up (>300 confirmations).
I've halted sending new amounts to cryptsy for now, as I don't want to have any more in limbo, and have started looking into what it would take to manually trade on another exchange. Unfortunately, none of the exchanges support all of our coins (or even most of our coins), but we can always split them to multiple exchanges. This again brings up the risk of taking time between earning coins, and being able to trade them (manually), but that seems like less of a serious detriment as cryptsy is causing the same issue (we send coins, and don't get to trade them for a many hours).
Here are the exchanges I've found, and what of our coins they support:
Vircurex:
DGC, DOGE, LTC, WDC
Bter:
LTC, BTB, CNC, DGC, DOGE, MEC, NET, TAG, WDC
MCX:
LTC, FTC, MNC, WDC
CoinEx:
CAP, CAT, DGC, DOGE, FTC, LKY, LOT, LTC, MEC, MNC, MOON, PHS, PXC, WDC
CoinsE:
ALF, DOGE, ELC, FTC, FRK, GRD, GLC, LTC, MEC, NET, SBC, SPT, TAG, WDC
CoinEx/CoinsE look to have the most matches, but for our speed, the depth is a joke (many coins sub 1 btc bid depth). Not sure trading there is even worth it (we'd destroy their depth super quickly).
Anyone have any ideas on other exchanges that have better depth?
Just went over CoinedUp & they have the following of the ones you'd listed (didnt check others).
CoinedUp:
WDC, LTC, DOGE, CAT, TAG, FTC, LOT, MOON, SBC,
https://coinedup.com/http://www.reddit.com/r/coinedup