I have another thought. I have a DSI with Acekard 2i, and i know at first i was running the official firmware on my card and i had all sorts of problems with Moonshell 2.00 or above, but when I switched to the unofficial AKAIO firmware, i haven't had a problem with any of Moonshell 2.00 or later and i'm using Moonshell 2.05 right now with no problems.
So maybe what i'm suggesting is maybe an older firmware for your card or different firmware may may things work more smoothly, i'm unfamiliar with your card, but check it out.