Can apf firewall suddenly block a lot of legitimate traffic?

Just wondering, can apf firewall misfire and suddenly block a lot of legitimate traffic? If I suspect this, just wondering, what's the best solution? From what I gather, I should either:

1) Flush ip tables

2) Stop apf firewall temporarily (/etc/rc.d/init.d/apf stop)?

If so, can someone post the commands to flush IP tables? My server is cPanel/ WHM based btw.

Thanks,

 

 

 

 

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