It's been awhile but I used an Asset clearing account (a Bank type)

I Deposited refunds into it.

Penalties and interest can be added to the tax "bill" through the Tax module. Make sure you set the date correctly.

Interest earned needs to be added to the clearing account by a Journal Entry.

Payments to CRA are made in the tax module of QBO but through the clearing account if there is a positive balance on CRA account.

Print off the CRA transactions list and follow that. It is very convoluted but can be done. Haha.

Hope that helps.