The security chiefs intervened to tame a safety crisis after the matatu operators vowed to continue with their protests.
Last Monday, matatu operators brought Nakuru town to a standstill as they engaged police in running battles.
They lit bonfires and barricaded roads within the CBD as they demanded audience with the governor.
The matatu operators have accused the county government of neglecting them after dumping them outside the CBD.
The national government has waded into the stand-off surrounding the relocation of matatus from Nakuru town's central business district and called for an amicable solution to end protests by operators.
On Monday Rift Valley Regional Coordinator George Natembeya held a meeting with a section of the matatu owners in his office and ordered them to call off the protests to allow for dialogue in order to resolve the stalemate.