A method, system and computer program product for implementing a first Virtual Machine (VM) and a first guest OS in the VM, on a computing system that has a host OS and a host desktop. The first VM has a non-native application associated with the first VM and the first guest OS; means for replacing the first guest OS in the first VM with a different guest OS; a second VM and a second guest OS in the second VM running on the processor; upon a user attempting to launch the non-native application, means for associating the non-native application with the second VM; and means for determining compatibility of the non-native application with the second guest OS; The non-native application is launched inside the second VM.