Decision Logic has it's hiccups sometimes. I still run across the occasional bank that's not compatible, including TD Bank (but they seem to be incompatible with any 3rd party thing I've ever tried with them) and occasionally you will get daily balances that make no sense when comparing them to physical bank statements even though everything else (all transactions within the statement etc.) check out.

Like 5day said, usually JoinMe usually does the trick with most merchants when it's not compatible.