ESXi 6.5 includes a new native driver (vmw_ahci) for SATA AHCI controllers, but that introduces performance problems with a lot of controllers and/or disks.
Try to disable the native driver and revert to the older sata-ahci driver by running
esxcli system module set --enabled=false --module=vmw_ahci
Reboot the server after changing it and your performance should be OK again.