I've installed a m.2 ssd to my laptop and now i want to clone my hdd to it. What i want to know is can i clone only the primary partition which contains windows and leave the other partitions of the hdd as it is. Will i be able to use these other partitions normally after the clone.
If you want to boot from cloned drive successfully, you must clone the system partition and the related partitions like System Reserved Partition at the same time. So I suggest you perform a system clone. Here is a full guide about how to clone OS to SSD.