Speaking after a meeting of the operative corps for animal health, Nagy said the livestock at two of the four farms where FMD was detected had been destroyed.
Culling will finish, hopefully, by the weekend, he added.
He said 60,000 blood tests had been conducted at 749 farms and all had been negative for FMD.
Work is underway to determine how the virus entered Hungary, he added.
Kristóf Gál, a spokesman for the National Police Headquarters (ORFK), said the closure of a number of crossings along the border with Austria meant long waits at the crossings that remained open.
He advised travellers to check the police.hu website for the latest information on border crossings with Austria and Slovakia.
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