Former MSP Keith Raffan has had £6,000 deducted from his pension until he can explain irregularities in his expenses.
Mr Raffan was investigated over his parliamentary expenses
The Lib Dem quit in January, blaming a long-running back problem. He had submitted a £41,000 mileage claim, which was double that of any other MSP.
Last month, parliament officials decided the 56-year-old should be entitled to access his £15,000 pension.
But after an independent audit they have decided to withhold £6,000 from his one-off £25,000 ill health payment.
Mr Raffan's expenses claim was examined by the Holyrood auditors Deloitte and Touche.
The Scottish Parliament said it was entitled to pursue the return of any allowances incorrectly claimed or received.