Church designated funds

I just started doing the bookkeeping for a church and they have their designated funds set up as sub accounts of their checking account. That way, in the chart of accounts, it is easy to see the running balance of each designated fund and what part of the checking account is already designated to something specific.

Can you think of a reason that this wouldnt work??

The other church I do bookkeeping for has their designated funds set up as equity accounts. But in order to keep the profit and loss correct the designated income has to be entered in as Miscellaneous income and then using a general journal entry to expense them into the equity account. Its kind of messy. And takes time at the end of each month to make sure none of the journal entries are missing.

I dont like using classes because if you get in a hurry and forget to add the class to a transaction, it would be difficult to know that it was missed, at all. How would you reconcile the classes to be sure they were accurate.