I can't swear, but I guess this is a Pmail thing. I do use Cobian Backup but never used its shadow copy facility. It needs .Net framework which I'm not willing to run on my machines. So, making long story short, I never used this feature and have no plans to do so.
What I think may be the cause of your problems is synching Pmail files. Pmail files are in constant change and each of them entitles a file to be synched to host. For example, a 2GB folder file (PMM/PMI pair) under synching will produce weird results. It most likely will have a 2GB .PMM file and only a 229KB .PMI index file. For each we have different writing time as well as transfer time. We can also have at backup host, at a given time, an index that do not belong to correspondent folder data. That said, I'm positive cloud synching should be avoided, at least in this scenario.
OTOH backup is different. You shut down the application and save its files to a local or remote repository (Cobian Backup handles this easily). You can save backup locally and then synch its files or transfer backups (full, incremental, or differential) directly to cloud host. This has been working well here for uncountable years. :)
-- Euler
Pegasus Mail 4.81.1154 Windows 7 Ultimate
IERenderer: 2.7.1.5 AttachMenu: 1.0.1.2
PMDebug: 2.5.8.34 BearHTML 4.9.9.6