A method for automatically modifying an executable file for a software agent is provided. The method comprises detecting original static entry and exit points in the executable file and generating corresponding transformed points; modifying the executable file by linking the executable file to the integrity services environment and embedding a signed agent manifest; loading the modified executable file into memory and registering a target list with the software agent's hypervisor, wherein the target list provides mappings between protected and active page tables; detecting dynamic entry and exit points in the executable file and generating corresponding transformed points; switching to a protected context, in response to a transformed exit point being invoked, and switching to an active context, in response a transformed entry point being invoked; and de-registering the software agent with the memory protection module, in response to the software agent being unloaded.