Obuya, a star of Kenya's 2003 World Cup semi-final success, was involved in an altercation with team-mate Irfan Karim during a recent tour of Sri Lanka.
Karim, an opening batsman was also handed a one-match suspension by the Cricket Kenya disciplinary committee which met on Friday to deliberate on the case.
"Both players have been warned that any future misbehaviour will land a stiffer action being taken against them," the committee said in a statement yesterday.
The ICC World Twenty20 qualifying tournament featuring 16 teams including Kenya is scheduled to start on November 15.
Only six teams will qualify for the World Twenty20 championships in Bangladesh in March.