Mr Were was arrested on Tuesday night after he hosted a meeting at his home in Nyagiela village.
Homa Bay police boss Esther Seroney said the MP did not ensure the participants observed physical and social distance.
A day after Nairobi Senator Johnston Sakaja was fined for flouting Covid-19 rules, Kasipul MP Ong'ondo Were was Wednesday arraigned over a similar charge.
Mr Were pleaded guilty to holding a public gathering where participants did not adhere to Covid-19 regulations.