Currently, influenza vaccination is offered for free to all patients over the age of 65 and for those in at-risk groups such as diabetics and those with chronic respiratory diseases.
GPs have raised concerns about having to deal with an increased workload caused by patients who have had a reaction to a flu jab that was not administered on the NHS.
Wiltshire GP Dr Nick Brown, said: 'One of my patients bought his influenza vaccine in a local supermarket as he did not fit the criteria for NHS provision.
'He was left with no choice but to pay for an off-the-shelf service.'
Unfortunately, three days later the patient had an adverse reaction from the flu jab and had to visit Dr Brown again.
GPC deputy chairman Dr Richard Vautrey, said: 'There are wider issues attached to charging for vaccinations that complicate the issue.'
