I ran into this issue recently.

BR does not give you the option to select the check reversal date. The batch created in the GL comes across with today's date, while the check is reversed in BR as of the original check's issued date. For a check that was issued in one month and reversed in another, the reconciliation for the first month will be off by the amount of that check - unless the user manually corrects the GL batch brought in from BR. The next month, the issue washes itself out.

In AP 8.1B (maybe earlier versions as well) you are able to specify the "As of" date for the reversal. This ability should be included in BR.