From the arch, Paladin took the man over to the mission.
You can see the fountain is still there.
Paladin then procedes into the cemetery to speak with the padre. This is where I had wished I had seen this episode before visiting the mission. It is another case of where watching another tv show or movie helps figure out the location. Had I seen this episode before I visited I would have been a little more certain while doing the video there for Zorro. As you can see the cemetery had a lot more tree cover and bushes covering up the area.