Thanks for your reply. After talking with LSI support they suggested installing "scsi-megaraid-sas version 6.609.07.00-1OEM" and disabling lsi--mr3 ( although it shows in the compatibility list ).
It was disabled with this command: esxcfg-module -d lsi_mr3
I have been testing it for 2 days and so far the "I/O freeze" didn't happened again. I still have to wait a few more days until I'm 100% sure that the issue was fixed.