British skies were lit up by the electric storms overnight and there were reports of flooding and homes left without power after torrential rain.
Stansted is London's third-busiest airport and is a key hub for the discount airline Ryanair, which said that its customers could get a full refund.
"A number of flights have regrettably been cancelled at Stansted Airport this morning due to an earlier airport fuelling system failure, caused by a lightning strike," a spokesman said.
"Engineers have been on site and have now restored the system. However flights may still be subject to diversion, delay or cancellation," Stansted said in a statement.
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