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Hi, Sam here , one of the UK tax Experts here on Just Answer, thank you for your question and I shall reply shortly
The tax suffered should have been offset against the amounts that were being recovered as I assume there was a correct tax position established as part of thei case. All I can advsie is that you write to the department that handles this case for HMRC/POCA to establish what happened to this tax paid over to HMRC and if NOT considered whether it was violable to refund back to your wife.
I feel the answer will be NO as one would assume the tax she paid was accurate for her directorship and salaried position as you state she was not considered as part of the fraud, and if she was then again one would assume this tax was considered in the bigger picture.
I would advise that if you had accountancy/legal representation during this time, you ask them perhaps to handle this matter for you as they would have all the information to hand and can best appraoch this with the relevent beckground and taxation knowledge
let me know if I can assist further