I've solved this problem before by configuring a setup which implements the 
Boot Loader Specification

https://www.freedesktop.org/wiki/Specifications/BootLoaderSpec/

I chose to do this by hand maintaining grub.cfg fragment files for each of my 
systems and including these files in the grub.cfg generated by grub-mkconfig 
via a custom grub hook. 

On April 21, 2016 3:00:55 PM EDT, drsmith <[email protected]> wrote:
>I'm currently working on installing a server with two logical drives in
>it:
>sda and sdb.  Each logical drive is going to get an installation of
>Linux
>and each install has a different purpose.  The first install is mostly
>used
>for recovery scenarios while the second would be the production
>installation.
>
>The issue I've run into is that I have two /boot partitions, but the
>MBR of
>the first disk only points to one grub.conf file.  Manually keeping
>these
>synchronized isn't something I'd like to do if I could avoid it.
>
>Either I have to have one shared /boot partition that gets mounted by
>both
>installations or I have to figure out how to get grub to chainload
>itself
>from the second drive.  In the chainload scenario, you would see two
>menus
>where choosing the install on the second hard drive gives you the menu
>for
>that installation.
>
>I've run this through the stack-exchange sites and I've tried many
>searches
>over the past few days, but information on this seems to be rather
>scarce.
>Maybe I'm not thinking of a better possibility.  Any insight you could
>offer would be greatly appreciated.
>
>Thanks.
>
>
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