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Sales Tax Liability report, inactive tax items and agencies display, totals wrong after converting to groups

I've created Sales Tax Groups and new Sales Tax Items to attempt to correctly calculate sales taxes for a client.  I printed the Sales Tax Liability Report for last month before and after this was done and the applicable invoices corrected.  The First issue is removing old tax agencies and incorrect codes from the report - I have deactivated the Vendor (named "Miscellaneous") and deactivated the Sales Tax Items - why do they still appear?  The last transaction was in 2008 that I can find (Customize report/advanced/Display Rows = Active).  There are others that I've just deactivated that have $0 on this report to the Valid Tax Agency however there are also no transaction within the report period.  The report has to be only showing active items, the entire list I just typed in isn't on here.  Where is this information pulling from?