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No, this does not sound right. As a resident of Virginia, Virginia has the right to tax all of your income. Since your employer was not collecting Virginia state taxes, you most likely have a large amount owed there, possibly including underpayment penalties.
As far as California is concerned, they consider the source of the income to be the location of the employee when the services are performed. If you did not ever set foot in California, you are not subject to their income tax. You should be getting a full refund of all taxes that were paid to California. Furthermore, you will want to notify your employer to either start withholding Virginia state taxes, or if they are not able to do that, at least file an exemption form for California state taxes and start paying estimated taxes on your own to Virginia.
To add to @RaifH's answer:
In order to obtain a refund of the incorrectly withheld CA taxes (assuming you never worked within CA), you must file a non-resident CA tax return, on which you show the CA withholdings but allocate zero income to CA.
Thank you for the response.
I was a resident of CA from 2018-2020, then moved back to VA because of COVID and working remotely. I became a resident of VA in 2020. Though I travelled to CA in 2021 to visit the site, it was about 60 days in total I was in CA (between business and pleasure).
Your explanation makes sense, and I see the correction to VA withholding I should have done,
Again, many thanks for your response.
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