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Organisations rarely charge one tax rate across everything. A membership fee may carry VAT while a refundable deposit does not, or a training course may be exempt where a ticket is not. VAT in Orgo lives in two places: on the invoice template, which sets the tax name and rate used, and on each invoice line, which carries the rate actually applied to that item.

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Invoice templates

A template holds the tax details that appear on every invoice issued from it. Settings → Invoices → Invoice templates.

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Charging VAT on one product but not another

Create a template per tax treatment, then issue each product’s invoices from the template that matches it.
1

Create a template for the standard case

For example, one with your normal VAT rate, used for membership fees.
2

Create a second template for the exempt case

No tax value, and a VAT exemption note that states the legal basis. Use this for deposits or anything else outside the scope of VAT.
3

Issue each invoice from the matching template

A membership fee and a refundable deposit are separate products, so they can be invoiced from separate templates even when the member pays for both at once.
The rate is stored on each invoice line at the moment the invoice is created, not looked up when the invoice is viewed. Changing a template later does not rewrite invoices already issued, which is what you want: a historical invoice keeps the rate that was correct on the day it was raised.

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Getting the exemption wording right

The exemption note is free text because the required wording differs by country and by the reason for exemption. Orgo does not check that what you write is correct for your jurisdiction. If you are unsure, ask your accountant for the exact sentence and paste it in, rather than paraphrasing.