Hello @john.carry021,
Let me exlpain, when it comes to the configuration of the agent.conf and ossec.conf. the agent.conf is the configuration of the agent and ossec.conf the Wazuh manager when it comes to syscheck.
The best way to approach the configuration of the agents to overwrite values without suffering any changes, is to make the changes using the centralize configuration.
For this go the group section in the picture below
Then you can create the group that will affect the agents where you want to apply the configuration.
Now you can add the SYSCHECK configuration on the group you have created
Here you can find the type of configuration for the differente OS in your system
Now, this configuration will replace the agent.conf of all the agents that you will add to this specific group. As you can see my frecuecny is set to 60 in the agent.conf, and the ossec.conf is still with frecuency 42300, you can change the frecuency of the manager with no problem and agents wont be affected.
The best practice is to always make changes in to agent.conf using centralize configuration, because if there is an update in the agents or the manager, any configuration made directly to the agent might be lost.
The Wazuh agent and manager have the FIM module enabled and pre-configured by default. However, we recommend that you review the configuration of your endpoints to ensure that you tailor the FIM settings, such as monitored paths, to your environment.
Regards.