The fire was believed to have been caused by a fuel leak caused by an improperly installed injector, but it was quickly brought under control before it could cause significant damage to the GSX-RR.
As usual, Rins have two bikes available for Friday training in Sepang.
The Spaniard starts the Malaysian GP weekend in tenth overall and is just four points behind Suzuki team-mate Andrea Iannone, having finished fifth last time at Phillip Island.
Rins said Thursday he was aiming for another top five or top six show this weekend.
“Here in the preseason [test] it was really good, now we arrive strengthened [after] many races in the top group, “said Rins.” I’ll try to give 100 percent.
“The motorcycle differs from the previous season in terms of electronics, aerodynamics and the engine too. We can do a good race.”