Ok, so I was hitting the same issue - a particularly busy test Exchange VM was successfully backing up, but would bomb out on the consolidation step - so I always had the yellow bang on the VM. The only way to remedy that was to power off the VM and delete snap/consolidate, then power back on. Not good.
I spoke to veeam (support case ID 00835299) and vmware support over several days, and the word I got was that in our scenario, the situation just could not be dealt with with vanilla settings - so - they sent me this article:http://kb.vmware.com/selfservice/micros ... Id=2082886
(Article number is 2082886 in case forum hoses the link.)
The short version is that I had to change a setting for our problem VM that allowed it to remain in an "unresponsive state" for the duration needed to consolidate the disks. (I used the PowerCLI option to target the one VM but didn't alter the time value under "Additional Info").
Well - I'm happy to report that the initial results look good, and the backups appear to be completing.
It's not a perfect solution, but until then - it increased joy.