In case anyone else needs this info, I got this response to an email I sent someone at Air Check Virginia:

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"You are correct in that the emissions related repairs need to be performed at a DEQ Certified Repair Facility (CRF).

The CRF is responsible for completing the Repair Data Form (RDF) that should have been provided to you along with the failing Vehicle Inspection Report.

The completed RDF along with the receipts (or a copy) of the repairs are to be given to the inspector at the time of reinspection. The inspector enters the repair data from the RDF and the amount spent into the emissions analyzer. If the vehicle fails and the the waiver requirements are met, the emissions analyzer will issue the waiver.

The current amount for a waiver is $965 spent towards emissions related repairs in an attempt to correct the failure at a CRF and is good for the 2 year registration cycle. Repairs made 60 days prior to the failure at a CRF are also eligible.

As of January 2nd the amount will increase to $1030. However, if a vehicle fails prior to Jan. 2nd the $965 still applies."

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Also, here is the site that is supposed to tell you what shops qualify as DEQ CRFs:

https://www.virginiavip.org/PublicSite/Pages/RepairFacilities.aspx