I encountered the same problem when I applied HF5. I have two VE's built the same way and both hard drives are thin provisioned. I was able to apply HF5 on one server, and then the second one had the same issue where the configuration wouldn't load. The following was in the logs:
May 6 05:57:11 localhost err mprov:14861:: 'Disk limit exceeded. 16188 MB are required to provision these modules, but only 3900 MB are available.'
I am guessing because it was thin provisioned it can't recognize all the space, but I am concerned that it happened on one of them and not the other. Is thick provisioning the disk the answer here to provide consistent results?