Chhouk Bandith's deputy, Deb Saroeun, will replace him on Friday.
Deputy police chief Keo Kong and Huot Samay and commune chief of Chrak Matess denied they have been involved in negotiations.
Chhouk Bandith is accused of firing into a group of some 1,000 protesters who had gathered to demand higher wages.
Chhoung Chu Ngy is accused of helping a deputy commune chief for the Sam Rainsy Party, leave detention at the Kandal court last year.
Witnesses said the suspect stepped out of his car, pulled out a hand gun and opened fire on a crowd of over 1,000 protesters.
Villagers complained that the new location lacks enough clean water, electricity, roads, schools and access to health care.
At least 50 people, whose houses were bulldozed early January, said their names are not in the new housing list.
Lt. Gen. Chhoeun Chanthan was found guilty for breach of confidence, distribution and selling of weapons and mismanagement.
Judge Pol Sam Oeun who heard the case in the appeal court said the verdict will be announced on 14 March.
Cambodia is scheduled to hold local commune council elections nationwide in June this year.
On Monday, three female workers were attacked by an unknown gunman while protesting for a pay raise and better working conditions.
The women suffered wounds from handgun shots to their arms, chest, or back.