My issue was different. Probably the discussion there is one way to avoid it (also my tax rates are automatically populated) but can you please help with this specific part of the problem.
Is the Step 3 shown in this link correct ? Should you add all three under the same tax rate.
Yes all the step is correct. I have implemented it in my test server.
Step 3 : It is required to assign 3 tax in item tax template. Also verify that your customer and aupplier have tax category.
At the time of purchase order when you select any supplier, tax category will verify with their address also it will verify with purchase taxes and charges template,
If you have multiple item with multiple tax rate then it will go to verify your item tax template
I realised what was causing the error. When the Tax Category rule is present, it automatically populates the In State or Out State GST in the Purchase Taxes and Charges Template before the form probably gets to process some other parts. This causes all taxes to show up.
If we remove the tax from Purchase Taxes and Charges Template and then select the same tax manually after this, the tax rate is correctly updated to contain only IGST or SGST + CGST.
Pretty sure its a bug, that this doesn’t work when tax category automatically populates the Purchase Taxes and Charges Template.