Dockercli -SwitchDaemon option should help here.
$ ./DockerCli.exe
Usage: DockerCli.exe [-SwitchDaemon] [-Version]
-Version: Show the Docker for Windows version information
-SwitchDaemon: Point the Docker CLI to either Linux containers or Windows containers
-SharedDrives: List the shared drives
You can control which engine you want to switch with using option.
-SwitchLinuxEngine
-SwitchWindowsEngine
More info here.
Hope this helps.
Update:
DockerCli.exe can be found in Program Files folder.
In my case it was here /c/Program\ Files/Docker/Docker/DockerCli.exe