GST Register with JV Entries

Question for someone technical. Currently the GST resuter does not account for GST entries made via journal voucher. Can this be made a checkbox option? Is it relatively easy to customize? If so, a pointer would help us do this and contribute it back.

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What kind of GST entry are you making via Journal Entry? Are you booking invoices via Journal Entry? If yes, I will strongly suggest you to avoid that and use Sales Invoice instead.
It is really difficult to consider Journal Entries in GSTR1 and GSTR2 report.

@nabinhait please see the below discussion for the use case.

Is there a better way to handle this scenario?

Trying to bump up this post. This is a critical issue.