Trouble with dual-booting OS X

[Jandals]

Motherboard: GA-Z77x-UP5-TH
CPU: i7-3770K
Graphics: NVIDIA GTX 680
I have two hard drives with Clover and OS X installed on them. A main installation that I use, and a dummy that I experiment with.
I just discovered that, for the last year or more, Clover has been loading from the dummy drive and auto-booting to my main drive.
It works, I can usually boot without incident, but I suspect that it's causing some trouble when I try to update OS X or config.plist. I'm looking for a way to make Clover boot from Main instead of the Dummy drive.

Here's what I've done so far to convince my machine to load Clover from my Main drive.
*Confirmed I was booting from Dummy through Clover's boot logs.
*Removed Dummy from "Boot Priorities" list in UEFI settings
*Confirmed that Clover loads from Main and boots OS X when I choose Main from the UEFI boot list (F12)
*Booted to Dummy and used System Preferences to select Main as the boot volume
*removed nvram.plist from EFI partition on Dummy
*set default boot volume in config.plist on Main and Dummy to "Main"

Here's what I haven't done yet:
^unplug Dummy
^purge excess boot entries
^clear nvram through Terminal
^delete files from EFI partition on Dummy
^fixed it

I'll be grateful for more ideas.

 

[Going Bald]

Try booting your main OS X, open terminal and type diskutil list to ID your drives.
Install Clover, making sure you select the correct main drive for the installation. Select a different theme for the Clover so you can tell for sure which Clover is booting. Reboot to UEFI/BIOS and make sure the first drive in boot order is your main OS drive. Save&Exit and continue boot.
If the correct Clover theme comes up you have fixed the problem.