Were they ever able to resolve this for you?  My client is having the same issue.  4 out of 11 paychecks matched like usual, the other 7 are sitting in the bank feed and the Paycheck History, but never hit any of the journals so all of the account balances are off and I can't manually match to the bank feed.  Client called support and they told him it's a technical error and they have no estimate of when they will fix it.  Suggested we use Rules as a workaround which is a useless suggestion.  I could manually create entries for each check, but I'm afraid of that causing issues down the road if/when QuickBooks corrects their error.