Welcome tot the Community,
prior to doing anything, it's important to fully understand the current situation. To start with, please provide some details, like the size of the datastore, whether the VM's virtual disks are thin or thick provisioned as well as the exact build number of the ESX 4.0 host.
In addition provide a full list of files in the VM's folder to see all snapshots and their sizes (the Snasphot Manager may not list all snapshots).
André
PS: Discussion moved from VMware vSphere™ PowerCLI to VMware ESX™ 4