If there are adequate supporting the expenses incurred than there is no Income issue.. Hope the said transactions are not in cash because there is threshold limit of 10000 for claiming expenses in cash as per the I. T Act.. Further please ensure theat the expenses incurred do not attract TDS liability which otherwise would have deducted had the expenses were incurred by the company instead of Employee.. viz., the advances taken by the employee are spent towards the payment of professional fees which would have been liable to TDS otherwise.. in that case while booking the expenses the company has to deduct the TDS and pay to dept. which may be a additional hit to the company.