Hypervisor merge problem

The machine in work has two arrays, one is a raid 5 made of 3 disks, and an adaptec controller that reads OK, but writes slow. The other is a new raid 1+0 on a fake raid controller (software raid) with 4 disks, which performs about 5 times better on writes.  There are two virtual machines on the server, The first runs SQL, is about 100gb and it has been exported to and mounted on the faster array. The other VM is SBS2011, with everything that come with it, and is about 900gb, plus has 6 snapshots that need to merge.  Attempted to let merge run on the existing array, but in 6 hours, it only got to 8%!  Would like to copy the VM to the faster array and then let it merge there, but cannot stop the automatic merge when shutting down the VM.  Error says I do not have enough permissions.  Some research seems to lend the idea that the automatic cannot be stopped even by the admin, it just has to go.

What could be the possible consequences of shutting down hypervisor service, then move the files to the other array, start hypervisor which will probably complain it can't file it's files, then hopefully edit the settings to point the VM to it's new home.  Or perhaps just import from the new location and fire it up.

Anybody down this road before, your wisdom is eagerly anticipated.