The research by the University of Lincoln, UK, showed the chances of having a first stroke fell by around a fifth in the first 59 days after receiving the flu jab.
Vaccines administered earlier in the flu season offered greater protection.
In the first week after the jab, there were 36 per cent fewer cases of stroke than would be otherwise expected among a 'baseline' population, while the second week showed a 30 per cent reduction.
It is thought that some cardiovascular diseases may be triggered by flu and that protection provided by the flu vaccine against the seasonal influenza virus could therefore also protect against these conditions, which include stroke.
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The antibody response against influenza lasts four to six months.
Researchers used a method known as a self-controlled case series to assess how having the flu vaccine affected the risk of stroke over time in almost 18,000 cases.
Each case involved a patient aged 18 or over who had suffered a first stroke between 2001 and 2009, with just over half the cases being women.
"This is a significant finding, and if confirmed in a clinical trial could be one that can change lives," said Professor of Primary and Pre-Hospital Health Care, Niro Siriwardena.
"Our findings support current recommendations for the flu vaccination in people at high risk, but with the added effect of stroke prevention.
"Our study demonstrated that the earlier the vaccination is delivered the greater the linked reduction in stroke risk, so this should also encourage early vaccination," said Siriwardena.
"If a causative link between influenza vaccination and reduction in stroke risk is confirmed by experimental studies and if this leads to higher vaccinations rates, there would be significant benefits for patient and population health," said Siriwardena.
The study is published in the journal Vaccine.