Different deploy.cmd for the same project in different machines.

I got an issue today related to the MSDeploy version installed in the server. 

The same project build in machine 1 generates this section (I took this from the Web Deployment Package generated by VS2010):

@rem ---------------------------------------------------------------------------------
@rem if user does not set MsDeployPath environment variable, we will try to retrieve it from registry.
@rem ---------------------------------------------------------------------------------
if "%MSDeployPath%" == "" (
for /F "usebackq tokens=1,2,*" %%h  in (`reg query "HKLM\SOFTWARE\Microsoft\IIS Extensions\MSDeploy" /s  ^| findstr -i "InstallPath"`) do (
if /I "%%h" == "InstallPath" (
if /I "%%i" == "REG_SZ" (
if not "%%j" == "" (
if "%%~dpj" == "%%j" (
set MSDeployPath=%%j
))))))

And in machine 2:

@rem ---------------------------------------------------------------------------------
@rem if user does not set MsDeployPath environment variable, we will try to retrieve it from registry.
@rem ---------------------------------------------------------------------------------
if "%MSDeployPath%" == "" (
for /F "usebackq tokens=2*" %%i  in (`reg query "HKLM\SOFTWARE\Microsoft\IIS Extensions\MSDeploy\1" /v InstallPath`) do (
if "%%~dpj" == "%%j" ( 
set MSDeployPath=%%j
)))

if not exist "%MSDeployPath%\msdeploy.exe" (
echo. msdeploy.exe is not found on this machine. Please install Web Deploy before execute the script. 
echo. Please visit http://go.microsoft.com/?linkid=9278654
goto :usage
)

Machine 1: "HKLM\SOFTWARE\Microsoft\IIS Extensions\MSDeploy"

Machine 2: "HKLM\SOFTWARE\Microsoft\IIS Extensions\MSDeploy\1" 

If I try to install the package in a server wich contains only MSDeploy v2, Machine 1's package works and Machine 2's package doesn't.

BTW: Machine 1 and 2 are build controllers.

I compared the software in both machines, and they have almost the same setup:
VS2010 ultimate
Same service packs
Web Deployment Tool (1.0)

I want to understand why there is this difference, if anyone know what could be the real difference in the servers.