Windows Server 2012R2 disks go offline after reboot

Hi all,
I've a strange issue in my brand new Windows Server 2012R2, let's describe the environment:
Hypervisor = VMware ESX 5.5
Guest OS = Windows 2012 R2 Standard Edition
I've configured the guest OS with several disk for a SQL Server installation, each disk are presented as "pure" virtual disk to Windows that means no RDM (pass through disk).
After a reboot I've discovered that SQL Server has failed to come online, on a brief analisys, all the disks except system drive (C:) and a volume dedicated to swap file (D:) have not come online. They are present in disk management, but they are offline.
I've manually brung online those disk, than reboot and all returned to normality. Subsequent reboot have generated no issues.
In the system log I have no error message except that one of SQL that fails to came online due to the lack of disks...

This happened to me too. Except with server 2008 R2 and exchange 2010. My servers replicate offsite using zerto and I was testing failover and noticed the drive D was offline. Brought it online then rebooted and everything was fine.
So I just build a server 2012 R2 Datacenter edition VM on my production servers, gave it a second disk, initialized it, formatted it and assigned it the drive letter D. Rebooted after installing 3 windows updates and it was offline. There is nothing on this
server at all. It's a fresh install.
I'm running ESXi 5.5 build 2302651 with hardware version 8 and VMware tools version 9.4.11 build 2400950.
From my experience when you see this kind of stuff happen in multiple situations it will happen again. My worry is what if one of my hosts decides to die and HA kicks in and the disk is offline when it boots.
Anyone have anything to add to this?
Edit: My DR site where I tested my failover is DAS and my production site is iscsi. So I don't think the storage type matters.
Edit 2: The SCSI controller type is Paravirtual for all my VM's.

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